====== Salmon ======

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

===== Salmon overview =====

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

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

<code lang=text>
  Salmon: Salmon/1.10.3-GCC-12.3.0
    Description:
      Salmon is a wicked-fast program to produce a highly-accurate, transcript-level quantification estimate from RNA-seq data.

    This module can be loaded directly: module load Salmon/1.10.3-GCC-12.3.0

    Help:
      
      Description
      ===========
      Salmon is a wicked-fast program to produce a highly-accurate,
       transcript-level quantification estimate from RNA-seq data.
      
      More information
      ================
       - Homepage: https://github.com/COMBINE-lab/salmon
</code>

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

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

----

===== Salmon Help =====

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

<code lang=text>Description
===========
Salmon is a wicked-fast program to produce a highly-accurate,
 transcript-level quantification estimate from RNA-seq data.

More information
================
 - Homepage: https://github.com/COMBINE-lab/salmon

</code>

----

===== Salmon Dependencies =====

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

   * GCC/12.3.0
   * Boost/1.82.0-GCC-12.3.0
   * tbb/2021.11.0-GCCcore-12.3.0
   * cURL/8.0.1-GCCcore-12.3.0
   * libiconv/1.17-GCCcore-12.3.0
   * bzip2/1.0.8-GCCcore-12.3.0
   * XZ/5.4.2-GCCcore-12.3.0
   * zlib/1.2.13-GCCcore-12.3.0

----

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