How to get/make a .gf file? rmats2sashimi

Question

[Megan Noonan]

Can someone tell me how to make a .gf file for the grouping option of the Sashimi plot in rmats2sashimi?

Answer 1

[benformatics]

Did you read the manual? https://github.com/Xinglab/rmats2sashimiplot

As an example: --b1 a.bam,b.bam,c.bam --b2 d.bam,e.bam,f.bam with this grouping file

firstGroup: 1,4
secondGroup: 1-3,5,6

Defines firstGroup=a.bam,d.bam and secondGroup=a.bam,b.bam,c.bam,e.bam,f.bam