recipe virstrain

An RNA/DNA virus strain-level identification tool for short reads.

Homepage:

https://github.com/liaoherui/VirStrain

License:

MIT / MIT

Recipe:

/virstrain/meta.yaml

package virstrain

versions:

1.17-1,  1.17-0,  1.14-0,  1.13-0,  1.12-0,  1.11-0,  1.10-0,  1.9-0

depends biopython:

1.74

depends bowtie2:

depends matplotlib-base:

3.1.2

depends networkx:

2.4

depends numpy:

1.17.3

depends pandas:

1.0.1

depends plotly:

3.10.0

depends python:

3.7.3

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 virstrain

and update with::

   mamba update virstrain

To create a new environment, run:

mamba create --name myenvname virstrain

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/virstrain:<tag>

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

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Link to this page

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