diff --git a/assets/generate_yaml_asset.sh b/assets/generate_yaml_asset.sh index 75aa3145..f4f731ba 100755 --- a/assets/generate_yaml_asset.sh +++ b/assets/generate_yaml_asset.sh @@ -75,7 +75,7 @@ do echo " bowtie2_index: \"${i}/\"" >> igenomes/${species}/${genome}/${build}.yml done -# All source BWAmem1 +# Just first source BWAmem1 (not keeping version0.5.x or version0.6.0 for now) cat ngi-igenomes_file_manifest.txt | grep "BWAIndex" | grep -v "version" | rev | cut -d "/" -f 2- | rev | sort -u > all_bwaindex.txt for i in `cat all_bwaindex.txt`; @@ -111,5 +111,17 @@ do echo " dragmap_hashtable: \"${i}/\"" >> igenomes/${species}/${genome}/${build}.yml done +# All source star +cat ngi-igenomes_file_manifest.txt | grep "STARIndex" | rev | cut -d "/" -f 2- | rev | sort -u > all_star.txt + +for i in `cat all_star.txt`; +do + species=$(echo $i | cut -d "/" -f 5) + genome=$(echo $i | cut -d "/" -f 6) + build=$(echo $i | cut -d "/" -f 7) + + echo " star_index: \"${i}/\"" >> igenomes/${species}/${genome}/${build}.yml +done + # Homo_sapiens/GATK/GRCh37.yml should actually be Homo_sapiens/GATK/GRCh37decoy.yml mv igenomes/Homo_sapiens/GATK/GRCh37.yml igenomes/Homo_sapiens/GATK/GRCh37decoy.yml diff --git a/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10.yml b/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10.yml index 4950fa13..ab9f0da5 100644 --- a/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10.yml +++ b/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR10/Sequence/STARIndex/" diff --git a/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9.yml b/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9.yml index 7e06bfdb..493e4d08 100644 --- a/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9.yml +++ b/assets/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/Ensembl/TAIR9/Sequence/STARIndex/" diff --git a/assets/igenomes/Arabidopsis_thaliana/NCBI/TAIR10.yml b/assets/igenomes/Arabidopsis_thaliana/NCBI/TAIR10.yml index 6c07e79e..b5c42bc3 100644 --- a/assets/igenomes/Arabidopsis_thaliana/NCBI/TAIR10.yml +++ b/assets/igenomes/Arabidopsis_thaliana/NCBI/TAIR10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/TAIR10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/TAIR10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/TAIR10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/TAIR10/Sequence/STARIndex/" diff --git a/assets/igenomes/Arabidopsis_thaliana/NCBI/build9.1.yml b/assets/igenomes/Arabidopsis_thaliana/NCBI/build9.1.yml index b29a3535..6aaf61d0 100644 --- a/assets/igenomes/Arabidopsis_thaliana/NCBI/build9.1.yml +++ b/assets/igenomes/Arabidopsis_thaliana/NCBI/build9.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/build9.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/build9.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/build9.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Arabidopsis_thaliana/NCBI/build9.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13.yml b/assets/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13.yml index 00eb6a91..0c1ccff1 100644 --- a/assets/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13.yml +++ b/assets/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bacillus_cereus_ATCC_10987/NCBI/2004-02-13/Sequence/STARIndex/" diff --git a/assets/igenomes/Bacillus_subtilis_168/Ensembl/EB2.yml b/assets/igenomes/Bacillus_subtilis_168/Ensembl/EB2.yml index 50aee728..1fc0923f 100644 --- a/assets/igenomes/Bacillus_subtilis_168/Ensembl/EB2.yml +++ b/assets/igenomes/Bacillus_subtilis_168/Ensembl/EB2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bacillus_subtilis_168/Ensembl/EB2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bacillus_subtilis_168/Ensembl/EB2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bacillus_subtilis_168/Ensembl/EB2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bacillus_subtilis_168/Ensembl/EB2/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/Ensembl/Btau_4.0.yml b/assets/igenomes/Bos_taurus/Ensembl/Btau_4.0.yml index bf9bc52c..31ae9793 100644 --- a/assets/igenomes/Bos_taurus/Ensembl/Btau_4.0.yml +++ b/assets/igenomes/Bos_taurus/Ensembl/Btau_4.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/Btau_4.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/Btau_4.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/Btau_4.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/Btau_4.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/Ensembl/UMD3.1.yml b/assets/igenomes/Bos_taurus/Ensembl/UMD3.1.yml index 52748389..40ec4142 100644 --- a/assets/igenomes/Bos_taurus/Ensembl/UMD3.1.yml +++ b/assets/igenomes/Bos_taurus/Ensembl/UMD3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/UMD3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/UMD3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/UMD3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/Ensembl/UMD3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/NCBI/Btau_4.2.yml b/assets/igenomes/Bos_taurus/NCBI/Btau_4.2.yml index 9802a0a1..4be7915b 100644 --- a/assets/igenomes/Bos_taurus/NCBI/Btau_4.2.yml +++ b/assets/igenomes/Bos_taurus/NCBI/Btau_4.2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.2/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/NCBI/Btau_4.6.1.yml b/assets/igenomes/Bos_taurus/NCBI/Btau_4.6.1.yml index 7f98fa83..27ae72e5 100644 --- a/assets/igenomes/Bos_taurus/NCBI/Btau_4.6.1.yml +++ b/assets/igenomes/Bos_taurus/NCBI/Btau_4.6.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.6.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.6.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.6.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/Btau_4.6.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.1.yml b/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.1.yml index e9bb307a..898432bd 100644 --- a/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.1.yml +++ b/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.yml b/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.yml index 94d13a6b..975b66d6 100644 --- a/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.yml +++ b/assets/igenomes/Bos_taurus/NCBI/UMD_3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/NCBI/UMD_3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/UCSC/bosTau4.yml b/assets/igenomes/Bos_taurus/UCSC/bosTau4.yml index f315f695..a61673fb 100644 --- a/assets/igenomes/Bos_taurus/UCSC/bosTau4.yml +++ b/assets/igenomes/Bos_taurus/UCSC/bosTau4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau4/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/UCSC/bosTau6.yml b/assets/igenomes/Bos_taurus/UCSC/bosTau6.yml index 41042848..1f33b51f 100644 --- a/assets/igenomes/Bos_taurus/UCSC/bosTau6.yml +++ b/assets/igenomes/Bos_taurus/UCSC/bosTau6.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau6/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau6/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau6/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau6/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/UCSC/bosTau7.yml b/assets/igenomes/Bos_taurus/UCSC/bosTau7.yml index 0b13d123..975cbb3f 100644 --- a/assets/igenomes/Bos_taurus/UCSC/bosTau7.yml +++ b/assets/igenomes/Bos_taurus/UCSC/bosTau7.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau7/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau7/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau7/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau7/Sequence/STARIndex/" diff --git a/assets/igenomes/Bos_taurus/UCSC/bosTau8.yml b/assets/igenomes/Bos_taurus/UCSC/bosTau8.yml index b8d9b30c..364862d8 100644 --- a/assets/igenomes/Bos_taurus/UCSC/bosTau8.yml +++ b/assets/igenomes/Bos_taurus/UCSC/bosTau8.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau8/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau8/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau8/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Bos_taurus/UCSC/bosTau8/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215.yml b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215.yml index a58114ca..092b54aa 100644 --- a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215.yml +++ b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel215/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235.yml b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235.yml index 7db72b90..6ea71ea1 100644 --- a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235.yml +++ b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WBcel235/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS210.yml b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS210.yml index fcd43d77..bf37cf6a 100644 --- a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS210.yml +++ b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS210.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS210/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS210/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS210/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS210/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS220.yml b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS220.yml index 31117adc..b6a88cce 100644 --- a/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS220.yml +++ b/assets/igenomes/Caenorhabditis_elegans/Ensembl/WS220.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS220/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS220/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS220/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/Ensembl/WS220/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/NCBI/WS190.yml b/assets/igenomes/Caenorhabditis_elegans/NCBI/WS190.yml index e4bf79ff..8cd5fbf8 100644 --- a/assets/igenomes/Caenorhabditis_elegans/NCBI/WS190.yml +++ b/assets/igenomes/Caenorhabditis_elegans/NCBI/WS190.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS190/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS190/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS190/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS190/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/NCBI/WS195.yml b/assets/igenomes/Caenorhabditis_elegans/NCBI/WS195.yml index 379b3770..e3b05160 100644 --- a/assets/igenomes/Caenorhabditis_elegans/NCBI/WS195.yml +++ b/assets/igenomes/Caenorhabditis_elegans/NCBI/WS195.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS195/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS195/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS195/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/NCBI/WS195/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/UCSC/ce10.yml b/assets/igenomes/Caenorhabditis_elegans/UCSC/ce10.yml index e9f9c933..b030f15b 100644 --- a/assets/igenomes/Caenorhabditis_elegans/UCSC/ce10.yml +++ b/assets/igenomes/Caenorhabditis_elegans/UCSC/ce10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce10/Sequence/STARIndex/" diff --git a/assets/igenomes/Caenorhabditis_elegans/UCSC/ce6.yml b/assets/igenomes/Caenorhabditis_elegans/UCSC/ce6.yml index b9dc4ffb..326dd76a 100644 --- a/assets/igenomes/Caenorhabditis_elegans/UCSC/ce6.yml +++ b/assets/igenomes/Caenorhabditis_elegans/UCSC/ce6.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce6/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce6/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce6/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Caenorhabditis_elegans/UCSC/ce6/Sequence/STARIndex/" diff --git a/assets/igenomes/Canis_familiaris/Ensembl/BROADD2.yml b/assets/igenomes/Canis_familiaris/Ensembl/BROADD2.yml index df9fea19..34a4226e 100644 --- a/assets/igenomes/Canis_familiaris/Ensembl/BROADD2.yml +++ b/assets/igenomes/Canis_familiaris/Ensembl/BROADD2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/BROADD2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/BROADD2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/BROADD2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/BROADD2/Sequence/STARIndex/" diff --git a/assets/igenomes/Canis_familiaris/Ensembl/CanFam3.1.yml b/assets/igenomes/Canis_familiaris/Ensembl/CanFam3.1.yml index 566dcbda..dbf57320 100644 --- a/assets/igenomes/Canis_familiaris/Ensembl/CanFam3.1.yml +++ b/assets/igenomes/Canis_familiaris/Ensembl/CanFam3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/CanFam3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/CanFam3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/CanFam3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/Ensembl/CanFam3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Canis_familiaris/NCBI/build2.1.yml b/assets/igenomes/Canis_familiaris/NCBI/build2.1.yml index bc0b9bfb..9a22d75b 100644 --- a/assets/igenomes/Canis_familiaris/NCBI/build2.1.yml +++ b/assets/igenomes/Canis_familiaris/NCBI/build2.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build2.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build2.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build2.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build2.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Canis_familiaris/NCBI/build3.1.yml b/assets/igenomes/Canis_familiaris/NCBI/build3.1.yml index 1b3eb9a6..89749e36 100644 --- a/assets/igenomes/Canis_familiaris/NCBI/build3.1.yml +++ b/assets/igenomes/Canis_familiaris/NCBI/build3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/NCBI/build3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Canis_familiaris/UCSC/canFam2.yml b/assets/igenomes/Canis_familiaris/UCSC/canFam2.yml index 090174b3..c7a4ed44 100644 --- a/assets/igenomes/Canis_familiaris/UCSC/canFam2.yml +++ b/assets/igenomes/Canis_familiaris/UCSC/canFam2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam2/Sequence/STARIndex/" diff --git a/assets/igenomes/Canis_familiaris/UCSC/canFam3.yml b/assets/igenomes/Canis_familiaris/UCSC/canFam3.yml index 494f6006..6cf81e5d 100644 --- a/assets/igenomes/Canis_familiaris/UCSC/canFam3.yml +++ b/assets/igenomes/Canis_familiaris/UCSC/canFam3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Canis_familiaris/UCSC/canFam3/Sequence/STARIndex/" diff --git a/assets/igenomes/Danio_rerio/Ensembl/GRCz10.yml b/assets/igenomes/Danio_rerio/Ensembl/GRCz10.yml index 1df2189d..8fb0c434 100644 --- a/assets/igenomes/Danio_rerio/Ensembl/GRCz10.yml +++ b/assets/igenomes/Danio_rerio/Ensembl/GRCz10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/GRCz10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/GRCz10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/GRCz10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/GRCz10/Sequence/STARIndex/" diff --git a/assets/igenomes/Danio_rerio/Ensembl/Zv9.yml b/assets/igenomes/Danio_rerio/Ensembl/Zv9.yml index e6014f43..48081e12 100644 --- a/assets/igenomes/Danio_rerio/Ensembl/Zv9.yml +++ b/assets/igenomes/Danio_rerio/Ensembl/Zv9.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/Zv9/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/Zv9/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/Zv9/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Danio_rerio/Ensembl/Zv9/Sequence/STARIndex/" diff --git a/assets/igenomes/Danio_rerio/NCBI/GRCz10.yml b/assets/igenomes/Danio_rerio/NCBI/GRCz10.yml index c260c25e..477e27d8 100644 --- a/assets/igenomes/Danio_rerio/NCBI/GRCz10.yml +++ b/assets/igenomes/Danio_rerio/NCBI/GRCz10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/GRCz10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/GRCz10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/GRCz10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/GRCz10/Sequence/STARIndex/" diff --git a/assets/igenomes/Danio_rerio/NCBI/Zv9.yml b/assets/igenomes/Danio_rerio/NCBI/Zv9.yml index 87cde744..de3f8711 100644 --- a/assets/igenomes/Danio_rerio/NCBI/Zv9.yml +++ b/assets/igenomes/Danio_rerio/NCBI/Zv9.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/Zv9/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/Zv9/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/Zv9/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Danio_rerio/NCBI/Zv9/Sequence/STARIndex/" diff --git a/assets/igenomes/Danio_rerio/UCSC/danRer10.yml b/assets/igenomes/Danio_rerio/UCSC/danRer10.yml index ddf2b166..e698a51e 100644 --- a/assets/igenomes/Danio_rerio/UCSC/danRer10.yml +++ b/assets/igenomes/Danio_rerio/UCSC/danRer10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer10/Sequence/STARIndex/" diff --git a/assets/igenomes/Danio_rerio/UCSC/danRer7.yml b/assets/igenomes/Danio_rerio/UCSC/danRer7.yml index 674bd22c..d672fbc2 100644 --- a/assets/igenomes/Danio_rerio/UCSC/danRer7.yml +++ b/assets/igenomes/Danio_rerio/UCSC/danRer7.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer7/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer7/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer7/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Danio_rerio/UCSC/danRer7/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25.yml b/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25.yml index 5519c513..b859c0a2 100644 --- a/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25.yml +++ b/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.25/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.yml b/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.yml index 37278118..d4151305 100644 --- a/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.yml +++ b/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP5.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP5/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP6.yml b/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP6.yml index c000e94f..f4ebcc5c 100644 --- a/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP6.yml +++ b/assets/igenomes/Drosophila_melanogaster/Ensembl/BDGP6.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP6/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP6/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP6/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/Ensembl/BDGP6/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/NCBI/build4.1.yml b/assets/igenomes/Drosophila_melanogaster/NCBI/build4.1.yml index c9873feb..d2ce8dfc 100644 --- a/assets/igenomes/Drosophila_melanogaster/NCBI/build4.1.yml +++ b/assets/igenomes/Drosophila_melanogaster/NCBI/build4.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build4.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build4.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build4.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build4.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/NCBI/build5.3.yml b/assets/igenomes/Drosophila_melanogaster/NCBI/build5.3.yml index 8c674721..997f8660 100644 --- a/assets/igenomes/Drosophila_melanogaster/NCBI/build5.3.yml +++ b/assets/igenomes/Drosophila_melanogaster/NCBI/build5.3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.3/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/NCBI/build5.41.yml b/assets/igenomes/Drosophila_melanogaster/NCBI/build5.41.yml index 86e7422f..b3c8a04a 100644 --- a/assets/igenomes/Drosophila_melanogaster/NCBI/build5.41.yml +++ b/assets/igenomes/Drosophila_melanogaster/NCBI/build5.41.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.41/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.41/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.41/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5.41/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/NCBI/build5.yml b/assets/igenomes/Drosophila_melanogaster/NCBI/build5.yml index d36c1273..7e85b80b 100644 --- a/assets/igenomes/Drosophila_melanogaster/NCBI/build5.yml +++ b/assets/igenomes/Drosophila_melanogaster/NCBI/build5.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/NCBI/build5/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/UCSC/dm3.yml b/assets/igenomes/Drosophila_melanogaster/UCSC/dm3.yml index d1af75c3..f815ba14 100644 --- a/assets/igenomes/Drosophila_melanogaster/UCSC/dm3.yml +++ b/assets/igenomes/Drosophila_melanogaster/UCSC/dm3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm3/Sequence/STARIndex/" diff --git a/assets/igenomes/Drosophila_melanogaster/UCSC/dm6.yml b/assets/igenomes/Drosophila_melanogaster/UCSC/dm6.yml index 3ccb9624..8f16401a 100644 --- a/assets/igenomes/Drosophila_melanogaster/UCSC/dm6.yml +++ b/assets/igenomes/Drosophila_melanogaster/UCSC/dm6.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm6/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm6/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm6/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Drosophila_melanogaster/UCSC/dm6/Sequence/STARIndex/" diff --git a/assets/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28.yml b/assets/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28.yml index e625fa48..55a1c08b 100644 --- a/assets/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28.yml +++ b/assets/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Enterobacteriophage_lambda/NCBI/1993-04-28/Sequence/STARIndex/" diff --git a/assets/igenomes/Equus_caballus/Ensembl/EquCab2.yml b/assets/igenomes/Equus_caballus/Ensembl/EquCab2.yml index 9dbf5fb7..5b011b06 100644 --- a/assets/igenomes/Equus_caballus/Ensembl/EquCab2.yml +++ b/assets/igenomes/Equus_caballus/Ensembl/EquCab2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Equus_caballus/Ensembl/EquCab2/Sequence/STARIndex/" diff --git a/assets/igenomes/Equus_caballus/NCBI/EquCab2.0.yml b/assets/igenomes/Equus_caballus/NCBI/EquCab2.0.yml index 0542207c..7c499e70 100644 --- a/assets/igenomes/Equus_caballus/NCBI/EquCab2.0.yml +++ b/assets/igenomes/Equus_caballus/NCBI/EquCab2.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Equus_caballus/NCBI/EquCab2.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Equus_caballus/NCBI/EquCab2.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Equus_caballus/NCBI/EquCab2.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Equus_caballus/NCBI/EquCab2.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Equus_caballus/UCSC/equCab2.yml b/assets/igenomes/Equus_caballus/UCSC/equCab2.yml index f31eb7c8..d4493329 100644 --- a/assets/igenomes/Equus_caballus/UCSC/equCab2.yml +++ b/assets/igenomes/Equus_caballus/UCSC/equCab2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Equus_caballus/UCSC/equCab2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Equus_caballus/UCSC/equCab2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Equus_caballus/UCSC/equCab2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Equus_caballus/UCSC/equCab2/Sequence/STARIndex/" diff --git a/assets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1.yml b/assets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1.yml index ea9b5b0c..efba1146 100644 --- a/assets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1.yml +++ b/assets/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/Ensembl/EB1/Sequence/STARIndex/" diff --git a/assets/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17.yml b/assets/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17.yml index 29e6860f..3711c5fb 100644 --- a/assets/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17.yml +++ b/assets/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_DH10B/NCBI/2008-03-17/Sequence/STARIndex/" diff --git a/assets/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15.yml b/assets/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15.yml index 9d71efc8..eda32919 100644 --- a/assets/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15.yml +++ b/assets/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Escherichia_coli_K_12_MG1655/NCBI/2001-10-15/Sequence/STARIndex/" diff --git a/assets/igenomes/Gallus_gallus/Ensembl/Galgal4.yml b/assets/igenomes/Gallus_gallus/Ensembl/Galgal4.yml index 252a645d..00756150 100644 --- a/assets/igenomes/Gallus_gallus/Ensembl/Galgal4.yml +++ b/assets/igenomes/Gallus_gallus/Ensembl/Galgal4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/Galgal4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/Galgal4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/Galgal4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/Galgal4/Sequence/STARIndex/" diff --git a/assets/igenomes/Gallus_gallus/Ensembl/WASHUC2.yml b/assets/igenomes/Gallus_gallus/Ensembl/WASHUC2.yml index 56341835..168902b2 100644 --- a/assets/igenomes/Gallus_gallus/Ensembl/WASHUC2.yml +++ b/assets/igenomes/Gallus_gallus/Ensembl/WASHUC2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/WASHUC2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/WASHUC2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/WASHUC2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/Ensembl/WASHUC2/Sequence/STARIndex/" diff --git a/assets/igenomes/Gallus_gallus/NCBI/build2.1.yml b/assets/igenomes/Gallus_gallus/NCBI/build2.1.yml index 3e0694c5..295afb4c 100644 --- a/assets/igenomes/Gallus_gallus/NCBI/build2.1.yml +++ b/assets/igenomes/Gallus_gallus/NCBI/build2.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build2.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build2.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build2.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build2.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Gallus_gallus/NCBI/build3.1.yml b/assets/igenomes/Gallus_gallus/NCBI/build3.1.yml index b9d14ce7..081751e5 100644 --- a/assets/igenomes/Gallus_gallus/NCBI/build3.1.yml +++ b/assets/igenomes/Gallus_gallus/NCBI/build3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/NCBI/build3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Gallus_gallus/UCSC/galGal3.yml b/assets/igenomes/Gallus_gallus/UCSC/galGal3.yml index b97e65dd..67e8eabb 100644 --- a/assets/igenomes/Gallus_gallus/UCSC/galGal3.yml +++ b/assets/igenomes/Gallus_gallus/UCSC/galGal3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal3/Sequence/STARIndex/" diff --git a/assets/igenomes/Gallus_gallus/UCSC/galGal4.yml b/assets/igenomes/Gallus_gallus/UCSC/galGal4.yml index e60a1735..c47d7a2a 100644 --- a/assets/igenomes/Gallus_gallus/UCSC/galGal4.yml +++ b/assets/igenomes/Gallus_gallus/UCSC/galGal4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Gallus_gallus/UCSC/galGal4/Sequence/STARIndex/" diff --git a/assets/igenomes/Glycine_max/Ensembl/Gm01.yml b/assets/igenomes/Glycine_max/Ensembl/Gm01.yml index a382b9ad..6859cebb 100644 --- a/assets/igenomes/Glycine_max/Ensembl/Gm01.yml +++ b/assets/igenomes/Glycine_max/Ensembl/Gm01.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Glycine_max/Ensembl/Gm01/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Glycine_max/Ensembl/Gm01/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Glycine_max/Ensembl/Gm01/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Glycine_max/Ensembl/Gm01/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/Ensembl/GRCh37.yml b/assets/igenomes/Homo_sapiens/Ensembl/GRCh37.yml index 666e7a71..95d25160 100644 --- a/assets/igenomes/Homo_sapiens/Ensembl/GRCh37.yml +++ b/assets/igenomes/Homo_sapiens/Ensembl/GRCh37.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/Ensembl/GRCh37/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/Ensembl/GRCh37/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/Ensembl/GRCh37/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/Ensembl/GRCh37/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/NCBI/GRCh38.yml b/assets/igenomes/Homo_sapiens/NCBI/GRCh38.yml index deaacb79..134c7ee2 100644 --- a/assets/igenomes/Homo_sapiens/NCBI/GRCh38.yml +++ b/assets/igenomes/Homo_sapiens/NCBI/GRCh38.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/NCBI/GRCh38Decoy.yml b/assets/igenomes/Homo_sapiens/NCBI/GRCh38Decoy.yml index a16ad606..e8cd2353 100644 --- a/assets/igenomes/Homo_sapiens/NCBI/GRCh38Decoy.yml +++ b/assets/igenomes/Homo_sapiens/NCBI/GRCh38Decoy.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38Decoy/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38Decoy/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38Decoy/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/GRCh38Decoy/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/NCBI/build36.3.yml b/assets/igenomes/Homo_sapiens/NCBI/build36.3.yml index b4de2ee2..740f4f43 100644 --- a/assets/igenomes/Homo_sapiens/NCBI/build36.3.yml +++ b/assets/igenomes/Homo_sapiens/NCBI/build36.3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build36.3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build36.3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build36.3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build36.3/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/NCBI/build37.1.yml b/assets/igenomes/Homo_sapiens/NCBI/build37.1.yml index cfdd85dc..f0edf6a0 100644 --- a/assets/igenomes/Homo_sapiens/NCBI/build37.1.yml +++ b/assets/igenomes/Homo_sapiens/NCBI/build37.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/NCBI/build37.2.yml b/assets/igenomes/Homo_sapiens/NCBI/build37.2.yml index 5270f1a0..781627f7 100644 --- a/assets/igenomes/Homo_sapiens/NCBI/build37.2.yml +++ b/assets/igenomes/Homo_sapiens/NCBI/build37.2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/NCBI/build37.2/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/UCSC/hg18.yml b/assets/igenomes/Homo_sapiens/UCSC/hg18.yml index e3e03c7c..aa982a3a 100644 --- a/assets/igenomes/Homo_sapiens/UCSC/hg18.yml +++ b/assets/igenomes/Homo_sapiens/UCSC/hg18.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg18/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg18/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg18/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg18/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/UCSC/hg19.yml b/assets/igenomes/Homo_sapiens/UCSC/hg19.yml index d4f1d7ba..ae99c981 100644 --- a/assets/igenomes/Homo_sapiens/UCSC/hg19.yml +++ b/assets/igenomes/Homo_sapiens/UCSC/hg19.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg19/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg19/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg19/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg19/Sequence/STARIndex/" diff --git a/assets/igenomes/Homo_sapiens/UCSC/hg38.yml b/assets/igenomes/Homo_sapiens/UCSC/hg38.yml index 8f36a2fd..19161523 100644 --- a/assets/igenomes/Homo_sapiens/UCSC/hg38.yml +++ b/assets/igenomes/Homo_sapiens/UCSC/hg38.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg38/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg38/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg38/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Homo_sapiens/UCSC/hg38/Sequence/STARIndex/" diff --git a/assets/igenomes/Macaca_mulatta/Ensembl/Mmul_1.yml b/assets/igenomes/Macaca_mulatta/Ensembl/Mmul_1.yml index aa0f62ed..b8f77362 100644 --- a/assets/igenomes/Macaca_mulatta/Ensembl/Mmul_1.yml +++ b/assets/igenomes/Macaca_mulatta/Ensembl/Mmul_1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Macaca_mulatta/Ensembl/Mmul_1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Macaca_mulatta/Ensembl/Mmul_1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Macaca_mulatta/Ensembl/Mmul_1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Macaca_mulatta/Ensembl/Mmul_1/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/Ensembl/GRCm38.yml b/assets/igenomes/Mus_musculus/Ensembl/GRCm38.yml index a5ed541c..04f7aa40 100644 --- a/assets/igenomes/Mus_musculus/Ensembl/GRCm38.yml +++ b/assets/igenomes/Mus_musculus/Ensembl/GRCm38.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/GRCm38/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/Ensembl/NCBIM37.yml b/assets/igenomes/Mus_musculus/Ensembl/NCBIM37.yml index c40e66de..ccee0ecd 100644 --- a/assets/igenomes/Mus_musculus/Ensembl/NCBIM37.yml +++ b/assets/igenomes/Mus_musculus/Ensembl/NCBIM37.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/NCBIM37/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/NCBIM37/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/NCBIM37/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/Ensembl/NCBIM37/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/NCBI/GRCm38.yml b/assets/igenomes/Mus_musculus/NCBI/GRCm38.yml index d963e689..e6851fe7 100644 --- a/assets/igenomes/Mus_musculus/NCBI/GRCm38.yml +++ b/assets/igenomes/Mus_musculus/NCBI/GRCm38.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/GRCm38/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/GRCm38/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/GRCm38/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/GRCm38/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/NCBI/build37.1.yml b/assets/igenomes/Mus_musculus/NCBI/build37.1.yml index 82daba25..009394d0 100644 --- a/assets/igenomes/Mus_musculus/NCBI/build37.1.yml +++ b/assets/igenomes/Mus_musculus/NCBI/build37.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/NCBI/build37.2.yml b/assets/igenomes/Mus_musculus/NCBI/build37.2.yml index 781bdbca..e3164954 100644 --- a/assets/igenomes/Mus_musculus/NCBI/build37.2.yml +++ b/assets/igenomes/Mus_musculus/NCBI/build37.2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/NCBI/build37.2/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/UCSC/mm10.yml b/assets/igenomes/Mus_musculus/UCSC/mm10.yml index 7e3cf9c6..58e031f0 100644 --- a/assets/igenomes/Mus_musculus/UCSC/mm10.yml +++ b/assets/igenomes/Mus_musculus/UCSC/mm10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/STARIndex/" diff --git a/assets/igenomes/Mus_musculus/UCSC/mm9.yml b/assets/igenomes/Mus_musculus/UCSC/mm9.yml index 1271ec90..63cdbf43 100644 --- a/assets/igenomes/Mus_musculus/UCSC/mm9.yml +++ b/assets/igenomes/Mus_musculus/UCSC/mm9.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm9/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm9/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm9/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm9/Sequence/STARIndex/" diff --git a/assets/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1.yml b/assets/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1.yml index e6b77ff0..2e0bcc69 100644 --- a/assets/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1.yml +++ b/assets/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/Ensembl/H37Rv.EB1/Sequence/STARIndex/" diff --git a/assets/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07.yml b/assets/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07.yml index ca91e5f7..9ed6e6f6 100644 --- a/assets/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07.yml +++ b/assets/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Mycobacterium_tuberculosis_H37RV/NCBI/2001-09-07/Sequence/STARIndex/" diff --git a/assets/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0.yml b/assets/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0.yml index 7f72d03d..e6a19a45 100644 --- a/assets/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0.yml +++ b/assets/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/IRGSP-1.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Oryza_sativa_japonica/Ensembl/MSU6.yml b/assets/igenomes/Oryza_sativa_japonica/Ensembl/MSU6.yml index f78c97c7..99d7a7fc 100644 --- a/assets/igenomes/Oryza_sativa_japonica/Ensembl/MSU6.yml +++ b/assets/igenomes/Oryza_sativa_japonica/Ensembl/MSU6.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/MSU6/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/MSU6/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/MSU6/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Oryza_sativa_japonica/Ensembl/MSU6/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4.yml b/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4.yml index 2ffe1f9b..c32a7b2c 100644 --- a/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4.yml +++ b/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.4/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.yml b/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.yml index f32fd2af..00ae360d 100644 --- a/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.yml +++ b/assets/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/Ensembl/CHIMP2.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/NCBI/build2.1.yml b/assets/igenomes/Pan_troglodytes/NCBI/build2.1.yml index ee483956..54e3fbaa 100644 --- a/assets/igenomes/Pan_troglodytes/NCBI/build2.1.yml +++ b/assets/igenomes/Pan_troglodytes/NCBI/build2.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build2.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build2.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build2.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build2.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/NCBI/build3.1.yml b/assets/igenomes/Pan_troglodytes/NCBI/build3.1.yml index 2f71ba27..c623ca0b 100644 --- a/assets/igenomes/Pan_troglodytes/NCBI/build3.1.yml +++ b/assets/igenomes/Pan_troglodytes/NCBI/build3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/NCBI/build3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/UCSC/panTro2.yml b/assets/igenomes/Pan_troglodytes/UCSC/panTro2.yml index 47aede05..bd64eace 100644 --- a/assets/igenomes/Pan_troglodytes/UCSC/panTro2.yml +++ b/assets/igenomes/Pan_troglodytes/UCSC/panTro2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro2/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/UCSC/panTro3.yml b/assets/igenomes/Pan_troglodytes/UCSC/panTro3.yml index 507a48e0..113e1ffe 100644 --- a/assets/igenomes/Pan_troglodytes/UCSC/panTro3.yml +++ b/assets/igenomes/Pan_troglodytes/UCSC/panTro3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro3/Sequence/STARIndex/" diff --git a/assets/igenomes/Pan_troglodytes/UCSC/panTro4.yml b/assets/igenomes/Pan_troglodytes/UCSC/panTro4.yml index 257ae120..c392c5d3 100644 --- a/assets/igenomes/Pan_troglodytes/UCSC/panTro4.yml +++ b/assets/igenomes/Pan_troglodytes/UCSC/panTro4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pan_troglodytes/UCSC/panTro4/Sequence/STARIndex/" diff --git a/assets/igenomes/PhiX/Illumina/RTA.yml b/assets/igenomes/PhiX/Illumina/RTA.yml index 5b661b7a..79723c0d 100644 --- a/assets/igenomes/PhiX/Illumina/RTA.yml +++ b/assets/igenomes/PhiX/Illumina/RTA.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/PhiX/Illumina/RTA/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/PhiX/Illumina/RTA/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/PhiX/Illumina/RTA/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/PhiX/Illumina/RTA/Sequence/STARIndex/" diff --git a/assets/igenomes/PhiX/NCBI/1993-04-28.yml b/assets/igenomes/PhiX/NCBI/1993-04-28.yml index 0dc8f380..0fede8b5 100644 --- a/assets/igenomes/PhiX/NCBI/1993-04-28.yml +++ b/assets/igenomes/PhiX/NCBI/1993-04-28.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/PhiX/NCBI/1993-04-28/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/PhiX/NCBI/1993-04-28/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/PhiX/NCBI/1993-04-28/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/PhiX/NCBI/1993-04-28/Sequence/STARIndex/" diff --git a/assets/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13.yml b/assets/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13.yml index 1585a7af..2c7b487f 100644 --- a/assets/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13.yml +++ b/assets/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Pseudomonas_aeruginosa_PAO1/NCBI/2000-09-13/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4.yml b/assets/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4.yml index f98c707f..a35867bf 100644 --- a/assets/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4.yml +++ b/assets/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/RGSC3.4/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0.yml b/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0.yml index acf9886a..71e283b2 100644 --- a/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0.yml +++ b/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_5.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0.yml b/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0.yml index cd955926..27989494 100644 --- a/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0.yml +++ b/assets/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/Ensembl/Rnor_6.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4.yml b/assets/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4.yml index 120f0273..1e8babb9 100644 --- a/assets/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4.yml +++ b/assets/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/RGSC_v3.4/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0.yml b/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0.yml index c94ab004..9b8fa394 100644 --- a/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0.yml +++ b/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_5.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0.yml b/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0.yml index 50caf440..d50564e1 100644 --- a/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0.yml +++ b/assets/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/NCBI/Rnor_6.0/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/UCSC/rn4.yml b/assets/igenomes/Rattus_norvegicus/UCSC/rn4.yml index c3ff57d4..a6283321 100644 --- a/assets/igenomes/Rattus_norvegicus/UCSC/rn4.yml +++ b/assets/igenomes/Rattus_norvegicus/UCSC/rn4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn4/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/UCSC/rn5.yml b/assets/igenomes/Rattus_norvegicus/UCSC/rn5.yml index 89da3452..3a086503 100644 --- a/assets/igenomes/Rattus_norvegicus/UCSC/rn5.yml +++ b/assets/igenomes/Rattus_norvegicus/UCSC/rn5.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn5/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn5/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn5/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn5/Sequence/STARIndex/" diff --git a/assets/igenomes/Rattus_norvegicus/UCSC/rn6.yml b/assets/igenomes/Rattus_norvegicus/UCSC/rn6.yml index 2e3271ad..cd678de3 100644 --- a/assets/igenomes/Rattus_norvegicus/UCSC/rn6.yml +++ b/assets/igenomes/Rattus_norvegicus/UCSC/rn6.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn6/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn6/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn6/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rattus_norvegicus/UCSC/rn6/Sequence/STARIndex/" diff --git a/assets/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07.yml b/assets/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07.yml index 6246e67e..48a38608 100644 --- a/assets/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07.yml +++ b/assets/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Rhodobacter_sphaeroides_2.4.1/NCBI/2005-10-07/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2.yml b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2.yml index 3b8d920d..4069568d 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF2/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3.yml b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3.yml index 1fd559b0..08018c21 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF3/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4.yml b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4.yml index 8dcd365b..45e69fb7 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/EF4/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1.yml b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1.yml index 5af7f006..05c12afb 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/Ensembl/R64-1-1/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1.yml b/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1.yml index 0bceca93..4596a620 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build2.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1.yml b/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1.yml index 8797bd58..b4c52cad 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/NCBI/build3.1/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2.yml b/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2.yml index f96f85e0..d26b03d9 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer2/Sequence/STARIndex/" diff --git a/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3.yml b/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3.yml index aeceb9b3..ed33f593 100644 --- a/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3.yml +++ b/assets/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Saccharomyces_cerevisiae/UCSC/sacCer3/Sequence/STARIndex/" diff --git a/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1.yml b/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1.yml index b76a3090..d24a44a0 100644 --- a/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1.yml +++ b/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF1/Sequence/STARIndex/" diff --git a/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2.yml b/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2.yml index b7da811c..732c2ae5 100644 --- a/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2.yml +++ b/assets/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Schizosaccharomyces_pombe/Ensembl/EF2/Sequence/STARIndex/" diff --git a/assets/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27.yml b/assets/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27.yml index 5f8cd577..af518858 100644 --- a/assets/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27.yml +++ b/assets/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sorangium_cellulosum_So_ce_56/NCBI/2007-11-27/Sequence/STARIndex/" diff --git a/assets/igenomes/Sorghum_bicolor/Ensembl/Sbi1.yml b/assets/igenomes/Sorghum_bicolor/Ensembl/Sbi1.yml index 2014c0d6..81f481b5 100644 --- a/assets/igenomes/Sorghum_bicolor/Ensembl/Sbi1.yml +++ b/assets/igenomes/Sorghum_bicolor/Ensembl/Sbi1.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sorghum_bicolor/Ensembl/Sbi1/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sorghum_bicolor/Ensembl/Sbi1/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sorghum_bicolor/Ensembl/Sbi1/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sorghum_bicolor/Ensembl/Sbi1/Sequence/STARIndex/" diff --git a/assets/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13.yml b/assets/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13.yml index 4607e9fe..b5ece1d9 100644 --- a/assets/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13.yml +++ b/assets/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Staphylococcus_aureus_NCTC_8325/NCBI/2006-02-13/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2.yml b/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2.yml index 6caa0c18..8ea4660e 100644 --- a/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2.yml +++ b/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa10.2/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa9.yml b/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa9.yml index a812fb88..50ce95d0 100644 --- a/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa9.yml +++ b/assets/igenomes/Sus_scrofa/Ensembl/Sscrofa9.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa9/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa9/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa9/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/Ensembl/Sscrofa9/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.2.yml b/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.2.yml index d2844d84..32734105 100644 --- a/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.2.yml +++ b/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10.2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10.2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10.2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10.2/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.yml b/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.yml index 566813e3..0b8afcb9 100644 --- a/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.yml +++ b/assets/igenomes/Sus_scrofa/NCBI/Sscrofa10.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa10/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/NCBI/Sscrofa9.2.yml b/assets/igenomes/Sus_scrofa/NCBI/Sscrofa9.2.yml index 4b3a1923..87a1a528 100644 --- a/assets/igenomes/Sus_scrofa/NCBI/Sscrofa9.2.yml +++ b/assets/igenomes/Sus_scrofa/NCBI/Sscrofa9.2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa9.2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa9.2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa9.2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/NCBI/Sscrofa9.2/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/UCSC/susScr2.yml b/assets/igenomes/Sus_scrofa/UCSC/susScr2.yml index ea29a02c..1fe3763c 100644 --- a/assets/igenomes/Sus_scrofa/UCSC/susScr2.yml +++ b/assets/igenomes/Sus_scrofa/UCSC/susScr2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr2/Sequence/STARIndex/" diff --git a/assets/igenomes/Sus_scrofa/UCSC/susScr3.yml b/assets/igenomes/Sus_scrofa/UCSC/susScr3.yml index d9140bf5..cee26f3f 100644 --- a/assets/igenomes/Sus_scrofa/UCSC/susScr3.yml +++ b/assets/igenomes/Sus_scrofa/UCSC/susScr3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Sus_scrofa/UCSC/susScr3/Sequence/STARIndex/" diff --git a/assets/igenomes/Zea_mays/Ensembl/AGPv2.yml b/assets/igenomes/Zea_mays/Ensembl/AGPv2.yml index 7998a5c4..f53ea450 100644 --- a/assets/igenomes/Zea_mays/Ensembl/AGPv2.yml +++ b/assets/igenomes/Zea_mays/Ensembl/AGPv2.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv2/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv2/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv2/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv2/Sequence/STARIndex/" diff --git a/assets/igenomes/Zea_mays/Ensembl/AGPv3.yml b/assets/igenomes/Zea_mays/Ensembl/AGPv3.yml index cedd6f3f..d7d4171d 100644 --- a/assets/igenomes/Zea_mays/Ensembl/AGPv3.yml +++ b/assets/igenomes/Zea_mays/Ensembl/AGPv3.yml @@ -7,3 +7,4 @@ bowtie1_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv3/Sequence/BowtieIndex/" bowtie2_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv3/Sequence/Bowtie2Index/" bwamem1_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv3/Sequence/BWAIndex/" + star_index: "s3://ngi-igenomes/igenomes/Zea_mays/Ensembl/AGPv3/Sequence/STARIndex/"