recipe scarap

A toolkit for prokaryotic comparative genomics

Homepage:

https://pypi.org/project/scarap

Developer docs:

https://github.com/swittouck/scarap

License:

GPL-3.0-or-later

Recipe:

/scarap/meta.yaml

Links:

doi: 10.1093/bioinformatics/btae735

package scarap

versions:

1.0.0-0

depends biopython:

>=1.67

depends ete3:

>=3.1.1

depends iqtree:

depends mafft:

depends mmseqs2:

depends numpy:

>=1.16.5

depends pandas:

depends python:

>=3.6.7,<=3.10

depends scipy:

>=1.4.1

depends wheel:

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 scarap

and update with::

   mamba update scarap

To create a new environment, run:

mamba create --name myenvname scarap

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/scarap:<tag>

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

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