You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
{{ message }}
This repository has been archived by the owner on Apr 19, 2023. It is now read-only.
Is your feature request related to a problem? Please describe.
I need to import RNA and ATAC data from Cell Ranger ARC outs/.
Describe the solution you'd like
getDataChannel should return separate channel entries for the data present in outs/, linked by sampleID, and having a different key describing the data type:
Describe alternatives you've considered
Use the standard tenx profile and process this channel afterward to extract these files. This might even be preferable, as it would limit the choices of input data profiles. There could be a 'translation' function to go from this input type to the ones listed above.
Additional context
N/A
The text was updated successfully, but these errors were encountered:
Is your feature request related to a problem? Please describe.
I need to import RNA and ATAC data from Cell Ranger ARC
outs/
.Describe the solution you'd like
getDataChannel should return separate channel entries for the data present in
outs/
, linked by sampleID, and having a different key describing the data type:[ sampleId, path/to/outs/filtered_feature_bc_matrix/*, 10x_mo_cellranger_mex_rna, ..., ... ]
[ sampleId, [ outs/atac_possorted_bam.bam, outs/atac_possorted_bam.bam.bai], bam, ..., ...]
[ sampleId, [ outs/atac_fragments.tsv.gz, outs/atac_fragments.tsv.gz.tbi], fragments, ..., ...]
Describe alternatives you've considered
Use the standard
tenx
profile and process this channel afterward to extract these files. This might even be preferable, as it would limit the choices of input data profiles. There could be a 'translation' function to go from this input type to the ones listed above.Additional context
N/A
The text was updated successfully, but these errors were encountered: