====== cutadapt ======

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

===== cutadapt overview =====

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

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

<code lang=text>
  cutadapt:
     Versions:
        cutadapt/4.9-GCCcore-12.3.0
        cutadapt/4.9 (E)

Names marked by a trailing (E) are extensions provided by another module.

  For detailed information about a specific "cutadapt" 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 cutadapt/4.9
</code>

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

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

----

===== cutadapt Help =====

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

<code lang=text>Description
===========
Cutadapt finds and removes adapter sequences, primers, poly-A tails and
 other types of unwanted sequence from your high-throughput sequencing reads.

More information
================
 - Homepage: https://opensource.scilifelab.se/projects/cutadapt/

Included extensions
===================
cutadapt-4.9, dnaio-1.2.1, xopen-1.7.0

</code>

----

===== cutadapt Dependencies =====

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

   * GCCcore/12.3.0
   * pigz/2.8-GCCcore-12.3.0
   * Python/3.11.3-GCCcore-12.3.0
   * python-isal/1.1.0-GCCcore-12.3.0

----

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