Hello everyone,

Recently, I've been undergoing some simple tests and tutorials for STAR and rMATS. However, I've spent some time trying to figure out how to obtain the required input files for rMATS. I've also built a simple genome index using chr22 directory which can be found here.

http://labshare.cshl.edu/shares/gingeraslab/www-data/dobin/STAR/STARtest/

I've managed to build both similar genome and map directory, but I was stuck figuring out how to produce either the required bam files / fastq files that are similar to the test data that was provided on this website: https://sourceforge.net/projects/rnaseq-mats/files/MATS/testData.tgz/download

I would appreciate it if there's a tutorial/tips that could help me figure out how to obtain these input files for rMATS.

Thanks