FastQC

Description

From the FastQC Web Site: 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.

Version

  • 0.11.5

Authorized Users

  • CIRCE account holders
  • SC account holders

Platforms

  • CIRCE cluster
  • SC cluster

Modules

FastQC requires the following module file to run:

  • apps/fastqc/0.11.5


Running FastQC on CIRCE/SC

The FastQC user guide is essential to understanding the application and making the most of it. The guide and this page should help you to get started with your simulations. Please refer to the Documentation section for a link to the guide.

  • Note on CIRCE: Make sure to run your jobs from your $WORK directory!
  • Note: Scripts are provided as examples only. Your SLURM executables, tools, and options may vary from the example below. For help on submitting jobs to the queue, see our SLURM User’s Guide.


Documentation

Home Page, User Guides, and Manuals

Reporting Bugs

Report bugs with FastQC to the IT Help Desk: rc-help@usf.edu