Computes a series of quality control metrics for RNA-seq data.
Usage:
-bwa
Path to BWA, which should be set if it’s not in your path and BWArRNA is used.
-BWArRNA
Use an on the fly BWA alignment for estimating rRNA content. The value should be the rRNA reference fasta. If this flag is absent, rRNA estimation will be based upon the rRNA transcript intervals provided in the GTF (a faster but less robust method).
-corr
GCT file for expression correlation comparison. Note, that
This is a companion discussion topic for the original entry at quay.io/cancercollaboratory/dockstore-tool-rnaseqc