Gene annotation file (GTF) matching index file used for mapping?

[Nico282828]

Dear DROP community,
I would like to ask if the gene annotation file (e.g. gencode v29) and fasta file we provide in the config file have to match those that were used during STAR index file generation for mapping.

Thank you!

Best Wishes,
Nico

[vyepez88]

Hi, the files do not have to exactly match the ones you used for mapping. Be sure, however, that the fasta file matches the genome build and chr style and the gtf file matches the genome build.

[Nico282828]

Thank you so much !