recipe chewbbaca

A complete suite for gene-by-gene schema creation and strain identification.

Homepage:

https://github.com/B-UMMI/chewBBACA

License:

GPL3 / GPL-3.0-only

Recipe:

/chewbbaca/meta.yaml

Links:

doi: 10.1099/mgen.0.000166

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.

package chewbbaca

Versions:

3.2.0-0,  3.1.2-0,  3.1.1-0,  3.1.0-0,  3.0.0-0,  2.8.5-1,  2.8.5-0,  2.8.4-0,  2.7.0-0, 

3.2.0-0,  3.1.2-0,  3.1.1-0,  3.1.0-0,  3.0.0-0,  2.8.5-1,  2.8.5-0,  2.8.4-0,  2.7.0-0,  2.6.0-0,  2.5.6-0,  2.5.5-0,  2.5.4-0,  2.5.2-0,  2.5.1-0,  2.1.0-0,  2.0.17.2-0,  2.0.17.1-0,  2.0.16-0,  2.0.15-0,  2.0.12-2,  2.0.8-2,  2.0.8-0,  2.0.6-0,  1.0-0

Depends:

• biopython >=1.78

• blast >=2.9.0

• clustalw >=2.1

• mafft >=7.505

• numpy >=1.23.4

• pandas >=1.5.1

• plotly >=5.8.0

• prodigal >=2.6.3

• python >=3.7

• requests >=2.27.1

• scipy >=1.9.3

• sparqlwrapper >=2.0.0

Required By:

• chewiesnake

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install chewbbaca

and update with:

conda update chewbbaca

or use the docker container:

docker pull quay.io/biocontainers/chewbbaca:<tag>

(see chewbbaca/tags for valid values for <tag>)

Download stats

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