FastQC is an application which takes a FastQ file and runs a series of tests on it to generate a comprehensive QC report to tell if there is anything unusual about your sequence. Each test is flagged as a pass, warning or fail depending on how far it departs from what you'd expect from a normal large dataset with no significant biases. It's important to stress that warnings or even failures do not necessarily mean that there is a problem with your data, only that it is unusual. It is possible that the biological nature of your sample means that you would expect this particular bias in your results.
- HPC_FASTQC_DIR - installation directory
How To Run
Note that FastQC 0.11 changes how duplication is calculated as described in http://proteo.me.uk/2013/09/a-new-way-to-look-at-duplication-in-fastqc-v0-11/.
- Validated 4/5/2018