recipe bacgwasim

BacGWASim is a simulator for Bacterial Machine learning and Genome-wide Association studies.

Homepage:

https://github.com/Morteza-M-Saber/BacGWASim

License:

MIT

Recipe:

/bacgwasim/meta.yaml

Links:

doi: 10.1093/bioinformatics/bth457

package bacgwasim

versions:

2.1.1-0,  2.1.0-0,  2.0.0-1,  2.0.0-0

depends bcftools:

1.10.2

depends dendropy:

depends gcta:

depends matplotlib-base:

>=3.4

depends numpy:

depends pandas:

depends plink:

depends python:

>=3

depends pyvcf:

depends scipy:

depends simbac:

depends snakemake:

depends snp-sites:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bacgwasim

and update with::

   mamba update bacgwasim

To create a new environment, run:

mamba create --name myenvname bacgwasim

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bacgwasim/tags`_ for valid values for ``<tag>``)

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