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Published 20 hours ago • verified publisher icon velocyto-team

Invalid value for 'GTFFILE'

Open linscnano opened this issue 2 years ago • 1 comments

Hi All，

I am running velocyto.py to process the 10x PBMCs data (v3.0.0).

My code is 'velocyto run10x -m cellranger-3.0.0/reference/expressed_repeats_annotation/hg38_rmsk.gtf cellranger-3.0.0/sample01 cellranger-3.0.0/reference/refdata-cellranger-GRCh38-3.0.0/genes/genes.gtf'

And it returns 'Error: Invalid value for 'GTFFILE': File 'cellranger-3.0.0/reference/refdata-cellranger-GRCh38-3.0.0/genes' does not exist.'

How can I solve this?

linscnano avatar Sep 12 '21 12:09 linscnano

genes.gtf is broken. try to tar refdata-cellranger-GRCh38-3.0.0.tar.gz again.

hyjforesight avatar Nov 15 '21 17:11 hyjforesight