recipe tracs

Tracs - Fast pairwise transmission inference from single genome and/or metagenomic data

Homepage:

https://github.com/gtonkinhill/tracs

Documentation:

https://github.com/gtonkinhill/tracs/tree/main/docs

License:

MIT / MIT

Recipe:

/tracs/meta.yaml

package tracs

versions:

1.0.1-1,  1.0.1-0,  1.0.0-0

depends _openmp_mutex:

>=4.5

depends htsbox:

depends joblib:

depends libgcc:

>=12

depends libstdcxx:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends minimap2:

depends ncbi-genome-download:

depends numpy:

depends pandas:

depends plotly:

depends pyfastx:

depends python:

>=3.12,<3.13.0a0

depends python_abi:

3.12.* *_cp312

depends samtools:

depends scipy:

depends sourmash:

depends tqdm:

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 tracs

and update with::

   mamba update tracs

To create a new environment, run:

mamba create --name myenvname tracs

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/tracs:<tag>

(see `tracs/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/tracs/README.html)