recipe refinem

A toolbox for improving population genomes.

Homepage:

http://pypi.python.org/pypi/refinem/

Documentation:

https://github.com/dparks1134/RefineM/blob/master/README.md

Developer docs:

https://github.com/dparks1134/RefineM

License:

GPL3 / GPL3

Recipe:

/refinem/meta.yaml

package refinem

(downloads) docker_refinem

versions:

0.1.2-0,  0.1.1-1,  0.1.1-0,  0.1.0-1,  0.1.0-0,  0.0.25-0,  0.0.24-3,  0.0.24-2

depends biolib:

>=0.0.45

depends blast:

>=2.6.0

depends dendropy:

depends diamond:

>=0.9.9

depends jinja2:

>=2.7.3

depends krona:

>=2.7

depends matplotlib-base:

>=1.4.0

depends mpld3:

>=0.2

depends numpy:

>=1.9.0

depends prodigal:

>=2.6.3

depends pysam:

depends python:

depends scipy:

>=1.0.0

depends weightedstats:

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 refinem

and update with::

   mamba update refinem

To create a new environment, run:

mamba create --name myenvname refinem

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/refinem:<tag>

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

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Link to this page

Render an install-with-bioconda 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/refinem/README.html)