Main tool: fastqc
Full documentation: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
Source code: https://github.com/s-andrews/FastQC
A tool designed to do provide some simple quality control checks on high throughput sequence data.
This docker image runs FASTQC on an input '.fastq.gz' file.
Example stats for a compressed (gzip) FASTQ: $ docker run --rm -u $(id -u):$(id -g) -v ${PWD}:/data staphb/fastqc:0.11.9 fastqc /data/SRX0000000_R1.fastq.gz
Output 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:0.11.9 fastqc -h