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
Dear developers,
in cellranger manual, it is reported that parameters --genome, --fasta and --genes of cellranger mkref can be specified multiple times, for each of the genomes that need to be merged. However, this feature does not seem to be available in scrnaseq v2.5.1 pipeline. It looks like users can create their own reference by running cellranger mkref outside of the scrnaseq pipeline, and then run it using --cellranger_index parameter instead of --genome_fasta and --gtf parameters. However, it would be nice to have this feature integrated in the pipeline.
Best,
SM
The text was updated successfully, but these errors were encountered:
Description of feature
Dear developers,
in cellranger manual, it is reported that parameters
--genome
,--fasta
and--genes
ofcellranger mkref
can be specified multiple times, for each of the genomes that need to be merged. However, this feature does not seem to be available in scrnaseq v2.5.1 pipeline. It looks like users can create their own reference by runningcellranger mkref
outside of the scrnaseq pipeline, and then run it using--cellranger_index
parameter instead of--genome_fasta
and--gtf
parameters. However, it would be nice to have this feature integrated in the pipeline.Best,
SM
The text was updated successfully, but these errors were encountered: