###private fork of fastqc (0.10.0)
added a read argument for unaligned bam files. probably breaks other file types, but I don't care.
#####call with: fastqc-csf/fastqc --read {d} file.bam
where {d} is:
- 0: unaligned bam file with one read only (4 in flags)
- 1: unaligned bam file with paired end reads. Takes only 1. read
- 2: unaligned bam file with paired end reads. Takes only 2. read
#####build:
- ant deploy.
- copy the fastqc-csf folder to your destination.