Closed divyanshusrivastava closed 1 month ago
Should be v8 already, see here: https://github.com/nf-core/scrnaseq/blob/c8f02f515d014ee2c98b401950e2cf7141a82b42/modules/nf-core/cellranger/count/main.nf#L5
@nick-youngblut is working on 10xV4 support in https://github.com/nf-core/scrnaseq/pull/348
The changes from #348 have been merged. Could you give it a try if you can run the pipeline on your data with the dev
version?
@grst I don't see any docs on SC5P-PE-v3
and SC5P-R2-v3
(CellRanger). Are they currently supported?
I would expect that when you specify auto
, cellranger would auto-detect the chemistries and run through. Would be great to test that + explicitly add them to the supported protocols though.
Thanks all, it worked for me with the latest pipeline version already. Did not try the dev. From my end, the issue can be closed !
Description of feature
Current version of the pipelien (v2.7.0) runs Cellranger v7, however cellranger v8 is required to process libraries prepared with 10x Gem-X V4 protocol.
Requesting the developers to have cellranger v8 support. Thanks