0.12.1

fastqc docker image

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 usage

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.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:latest fastqc -h