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Replace VEP option --pick by --per_gene #533

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maxulysse opened this issue Feb 27, 2018 · 0 comments
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Replace VEP option --pick by --per_gene #533

maxulysse opened this issue Feb 27, 2018 · 0 comments
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We do have an issue with VEP and the --pick option. It will, for a variant, report only one gene. The behavior we need is instead that only one transcript is reported for each gene. So --pick must likely be replaced with --per_gene. More info here: https://www.ensembl.org/info/docs/tools/vep/script/vep_other.html#pick
@maxulysse maxulysse self-assigned this Feb 27, 2018
@maxulysse maxulysse mentioned this issue Feb 27, 2018
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szilvajuhos pushed a commit that referenced this issue Feb 27, 2018
Merge pull request #534 from MaxUlysse/VEP
a0425e7 
replace --pick by --per_gene to close #533
jherrero referenced this issue in UCL-BLIC/Sarek_v2.2.1 Apr 11, 2019
@maxulysse
replace --pick by --per_gene to close nf-core#533
45043f2
jherrero referenced this issue in UCL-BLIC/Sarek_v2.2.1 Apr 11, 2019
Merge pull request nf-core#534 from MaxUlysse/VEP
68bb9b5 
replace --pick by --per_gene to close nf-core#533
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