chewbbaca-software
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Table of Contents
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: 3.2.0
- Added: September, 2023
Usage
See versions that are available:
$ module avail chewbbaca
Load one version into your environment and run it:
$ module load chewbbaca/3.2.0 $ chewie
Installation
Notes from the sysadmin during installation.
$ sudo mkdir -p /export/apps/chewbbaca/3.2.0 $ sudo chown aorth /export/apps/chewbbaca/3.2.0 $ module load python/3.9 $ python3 -m venv /export/apps/chewbbaca/3.2.0/.venv $ source /export/apps/chewbbaca/3.2.0/.venv/bin/activate $ pip install --upgrade pip setuptools wheel $ pip install chewbbaca==3.2.0 $ sudo chown -R root:root /export/apps/chewbbaca/3.2.0
See the bioconda meta.yaml for chewbbaca for more information.
chewbbaca-software.1694079746.txt.gz · Last modified: 2023/09/07 09:42 by aorth