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ed-lau / jcast

Junction centric alternative splicing translator
MIT License
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README file #6

Closed malbahrani closed 3 years ago

malbahrani commented 4 years ago

Hi,

In the README file, you mentioned how to prepare the inputs for rMATS. Should not be only one .bam file per a pair of aligned FASTQ files after running STAR?

Thanks,

ed-lau commented 4 years ago

Hello, There should be one bam file per paired of aligned PE reads. rMATS analyzes the aligned bam files from at least 2 replicate samples in order to compare splice in level. JCAST uses the result to discard low-read and inconsistent junctions.