recipe eskrim

ESKRIM: EStimate with K-mers the RIchness in a Microbiome

Homepage:

https://forgemia.inra.fr/metagenopolis/eskrim

License:

GPL3 / GPL-3.0-or-later

Recipe:

/eskrim/meta.yaml

ESKRIM is a reference-free tool that compares microbial richness in shotgun metagenomic samples by counting k-mers

package eskrim

(downloads) docker_eskrim

versions:

1.0.9-0

depends kmer-jellyfish:

>=2.3.1

depends python:

>=3.12

requirements:

additional platforms:

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 eskrim

and update with::

   mamba update eskrim

To create a new environment, run:

mamba create --name myenvname eskrim

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/eskrim:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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