On September 22nd, OSC switched to Slurm for job scheduling and resource management on the Pitzer Cluster, along with the deployment of the new Pitzer hardware. We are in the process of updating the example job scripts for each software. If a Slurm example is not yet available, please consult our general Slurm information page or contact OSC help.

FastQC

FastQC provides quality control checks of high throughput sequence data that identify areas of the data that may cause problems during further analysis.

Availability and Restrictions

Versions

FastQC is available on the Owens cluster. The versions currently available at OSC are:

Version Owens Pitzer
0.11.5 X*  
0.11.7 X  
0.11.8   X*
* Current Default Version

You can use module spider fastqc to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.

Access

FastQC is available to all OSC users. If you have any questions, please contact OSC Help.

Publisher/Vendor/Repository and License Type

Babraham Bioinformatics, Open source

Usage

Usage on Owens

Set-up

To configure your enviorment for use of FastQC, use command module load fastqc. This will load the default version.

Usage on Pitzer

Set-up

To configure your enviorment for use of FastQC, use command module load fastqc. This will load the default version.

Further Reading

Supercomputer: 
Fields of Science: