Main tool & documentation: fastqc
Source code: https://github.com/s-andrews/FastQC/
Additional tools:
- perl 5.30.0
- java (openjdk 11.0.18)
A tool designed to do provide some simple quality control checks on high throughput sequence data.
Example stats for a compressed (gzip) FASTQ:
docker run --rm -u $(id -u):$(id -g) -v ${PWD}:/data staphb/fastqc:latest fastqc /data/SRX0000000_R1.fastq.gzOutput will be a QC report (.html and .zip).
View full fastqc help options:
docker run --rm -u $(id -u):$(id -g) -v ${PWD}:/data staphb/fastqc:latest fastqc -h