recipe vclean

vClean: Assessing the contamination of viral genomes

Homepage:

https://github.com/TsumaR/vclean

License:

GPL3 / GPL-3.0-only

Recipe:

/vclean/meta.yaml

package vclean

versions:

0.2.1-0,  0.2.0-0,  0.1.9-0,  0.1.5-0,  0.1.4-0,  0.1.3-0,  0.1.2-0,  0.0.2-0

depends biopython:

depends checkv:

depends kmer-jellyfish:

depends lightgbm:

depends matplotlib-base:

depends mmseqs2:

depends numpy:

depends pandas:

depends prodigal:

depends python:

3.9.0

depends scikit-learn:

depends seaborn-base:

depends seqkit:

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 vclean

and update with::

   mamba update vclean

To create a new environment, run:

mamba create --name myenvname vclean

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/vclean:<tag>

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

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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/vclean/README.html)