====== chewbbaca ======
chewBBACA is a comprehensive pipeline including a set of functions for the creation and validation of whole genome and core genome MultiLocus Sequence Typing (wg/cgMLST) schemas, providing an allele calling algorithm based on Blast Score Ratio that can be run in multiprocessor settings and a set of functions to visualize and validate allele variation in the loci. chewBBACA performs the schema creation and allele calls on complete or draft genomes.

===== Information =====

  * Version: git-87102063 (this roughly corresponds to version 3.3.0)
  * Added: September, 2023
  * Link: https://github.com/B-UMMI/chewBBACA

===== Usage =====

See versions that are available:
<code>$ module avail chewbbaca</code>

Load one version into your environment and run it:
<code>$ module load chewbbaca/git-87102063
$ chewie</code>


===== Installation ======
Notes from the sysadmin during installation.

<code>$ git clone https://github.com/B-UMMI/chewBBACA.git
$ sudo mkdir -p /export/apps/chewbbaca/git-87102063
$ sudo chown aorth /export/apps/chewbbaca/git-87102063
$ module load python/3.9
$ python3 -m venv /export/apps/chewbbaca/git-87102063/.venv
$ source /export/apps/chewbbaca/git-87102063/.venv/bin/activate
$ pip install --upgrade pip setuptools wheel
$ python3 setup.py install
$ sudo chown -R root:root /export/apps/chewbbaca/git-87102063</code>

See the [[https://github.com/bioconda/bioconda-recipes/blob/master/recipes/chewbbaca/meta.yaml|bioconda meta.yaml for chewbbaca]] for more information.