Introduction

FASTQC is a bioinformatics quality control program which is designed for use with high-throughput sequencer data. It's main purpose is to provide tools to give the user an idea of the quality of raw data coming out of a sequencer or sequence pipeline.

Using FASTQC on RCC Resources

FASTQC requires the piping of X in order to run its GUI. Log in to Spear using ssh -Y instead of simply ssh. Alternatively, one can use XPRA (explained here). After connecting, load the module fastqc using the command

module load fastqc

and run the program with the command fastqc. Further details on running the program can be found in this tutorial video.