Package Recipe 'gambit'

recipe gambit

Tool for rapid taxonomic identification of microbial pathogens

Homepage:: https://github.com/jlumpe/gambit
Documentation:: https://gambit-genomics.readthedocs.io/en/latest
License:: AGPL-3.0-or-later
Recipe:: /gambit/meta.yaml

GAMBIT (Genomic Approximation Method for Bacterial Identification and Tracking) is a tool for rapid taxonomic identification of microbial pathogens. It uses an extremely efficient genomic distance metric along with a curated database of approximately 50,000 reference genomes (derived from NCBI RefSeq) to identify unknown bacterial genomes within seconds.

package gambit¶

Versions:

1.0.0-0, 0.5.1-0, 0.5.0-0

Depends:

alembic >=1.0
attrs >=20
biopython >=1.69
cattrs >=1.0
click >=7.0
h5py >=3.0
libgcc-ng >=12
numpy >=1.13
numpy >=1.23.3,<2.0a0
python >=3.10,<3.11.0a0
python_abi 3.10.* *_cp310
scipy >=1.7
setuptools
sqlalchemy >=1.1

Required By:

Installation

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

conda install gambit

and update with:

conda update gambit

or use the docker container:

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

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

Download stats¶

Link to this page¶

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/gambit/README.html)