I am trying to generate MultiQC report from multiple QualiMap RNA-Seq QC files. I am using ‘usegalaxy.org’.
The MultiQC runs but does not give any output (0 bytes). I think the problem is because MultiQC is expecting
genome_coverage to be the first file in the QualiMap RNA-Seq QC output. However, I don’t see any such report.
genome_coverage is present in the QualiMap report, but not in the raw data folder. I’m not sure why this is happening.
QualiMap RNA-Seq QC v2.2.2d
P.S. MultiQC works fine with STAR .log output (v2.7.1a) and FastQC (v0.72) raw data.