====== Unicycler ======

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

===== Unicycler overview =====

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

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

<code lang=text>
  Unicycler: Unicycler/0.5.1-gompi-2024a
    Description:
      Unicycler is an assembly pipeline for bacterial genomes. It can assemble Illumina-only read sets where it functions as a
      SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. 

    This module can be loaded directly: module load Unicycler/0.5.1-gompi-2024a

    Help:
      
      Description
      ===========
      Unicycler is an assembly pipeline for bacterial genomes. It can assemble Illumina-only read sets
       where it functions as a SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore)
       where it runs a miniasm+Racon pipeline.
      
      More information
      ================
       - Homepage: https://github.com/rrwick/Unicycler
</code>

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

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

----

===== Unicycler Help =====

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

<code lang=text>Description
===========
Unicycler is an assembly pipeline for bacterial genomes. It can assemble Illumina-only read sets
 where it functions as a SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore)
 where it runs a miniasm+Racon pipeline.

More information
================
 - Homepage: https://github.com/rrwick/Unicycler

</code>

----

===== Unicycler Dependencies =====

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

   * gompi/2024a
   * Python/3.12.3-GCCcore-13.3.0
   * SPAdes/4.1.0-GCC-13.3.0
   * Racon/1.5.0-GCCcore-13.3.0
   * BLAST+/2.16.0-gompi-2024a

----

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