recipe mitos

MITOS is a tool for the annotation of metazoan mitochondrial genomes.

Homepage:

http://mitos.bioinf.uni-leipzig.de

Developer docs:

https://gitlab.com/Bernt/MITOS

License:

MIT / MIT

Recipe:

/mitos/meta.yaml

package mitos

versions:

2.1.8-0,  2.1.7-1,  2.1.7-0,  2.1.6-1,  2.1.6-0,  2.1.5-0,  2.1.4-0,  2.1.3-0,  2.1.2-0, 

2.1.8-0,  2.1.7-1,  2.1.7-0,  2.1.6-1,  2.1.6-0,  2.1.5-0,  2.1.4-0,  2.1.3-0,  2.1.2-0,  2.1.1-0,  2.1.0-0,  2.0.8-1,  2.0.8-0,  2.0.6-0,  2.0.5-0,  2.0.4-0,  2.0.3-0,  2.0.2-1,  2.0.2-0,  2.0.1-0,  1.1.6-0,  1.1.5-0,  1.1.4-0,  1.1.3-0,  1.1.1-1,  1.1.1-0,  1.1.0-0,  1.0.5-1,  1.0.5-0,  1.0.4-0,  1.0.2-0,  1.0.1-1,  1.0.1-0

depends biopython:

<1.82

depends blast:

>=2.9

depends hmmer:

3.2.*

depends infernal:

>=1.1.5

depends libtiff:

depends openjdk:

>8

depends pillow:

depends python:

>=3

depends r-base:

depends r-ggplot2:

depends r-reshape2:

depends reportlab:

depends viennarna:

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 mitos

and update with::

   mamba update mitos

To create a new environment, run:

mamba create --name myenvname mitos

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/mitos:<tag>

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

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