search

VCCRI / Sierra

Discover differential transcript usage from polyA-captured single cell RNA-seq data
GNU General Public License v3.0
49 stars 17 forks source link

GTF problem #32

Closed Lianqw closed 3 years ago

Lianqw commented 3 years ago

Hello, Can I use a different version of GTF when I run Sierra compared to the sequence? For example, use the GTF file of Ensembl GRCm38 release98 during sequence alignment. Use the GTF file in Ensembl GRCm38 release102 when running Sierra.

rj-patrick commented 3 years ago

Hi @Lianqw,

In general, we recommend using the same reference file for running Sierra as was used for the alignment. Perhaps for minor version differences it's not likely to matter a great deal, but the ideal situation is to keep the GTF file consistent.

Cheers, Ralph

Lianqw commented 3 years ago

Thank you very much!

best, Lian