FastQC software

FastQC is a software developped by Babraham Bioinformatics group from Babraham Institute.

FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis.

On the FastQC project page you can find a Documentation resource and some example reports.

Some posts dealing with FastQC fails cases are accessible on https://sequencing.qcfail.com/software/fastqc/.

For RNA-seq data, FastQC is used twice in Part 1, data preparation. It uses unaligned reads in fastq format to perform pre- and post-trimming checks for adapters and poor-quality sequences.

Figure 1 : simplified RNAseq pipeline.