====== FastQC ======

**FastQC** is a software module available on **Comet**.

===== FastQC overview =====

To access **FastQC** on Comet, run ''module load FastQC''. This will load the //default// version of **FastQC**.

An overview of the module information is shown below (''module -r spider ^FastQC$''):

<code lang=text>
  FastQC:
    Description:
      FastQC is a quality control application for high throughput sequence data. It reads in sequence data in a variety of formats and
      can either provide an interactive application to review the results of several different QC checks, or create an HTML based report
      which can be integrated into a pipeline.

     Versions:
        FastQC/0.11.9-Java-11
        FastQC/0.12.1-Java-11

  For detailed information about a specific "FastQC" package (including how to load the modules) use the module's full name.
  Note that names that have a trailing (E) are extensions provided by other modules.
  For example:

     $ module spider FastQC/0.12.1-Java-11
</code>

If there are multiple versions of **FastQC** listed, then you can load a //specific// version as follows:
<code lang=bash>
$ module load FastQC/version_string
</code>

You can find the most //up to date information// whilst logged on to Comet by running ''module -r spider ^FastQC$''.

----

===== FastQC Help =====

The module **FastQC** has the following embedded help text (''module help FastQC''):

<code lang=text>Description
===========
FastQC is a quality control application for high throughput
sequence data. It reads in sequence data in a variety of formats and can either
provide an interactive application to review the results of several different
QC checks, or create an HTML based report which can be integrated into a
pipeline.

More information
================
 - Homepage: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/

</code>

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===== FastQC Dependencies =====

The //default// version of the module **FastQC** has the following dependencies:

   * Java/11
   * Perl

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