recipe fegenie

HMM-based identification and categorization of iron genes and iron gene operons in genomes and metagenomes.

Homepage:

https://github.com/Arkadiy-Garber/FeGenie

License:

AGPL / AGPL-3.0

Recipe:

/fegenie/meta.yaml

Links:

doi: 10.3389/fmicb.2020.00037

package fegenie

versions:

1.2-4,  1.2-3,  1.2-2,  1.2-1,  1.2-0,  1.1-2,  1.1-1,  1.1-0,  1.0-0

depends blast:

depends diamond:

depends hmmer:

depends metabat2:

depends prodigal:

depends python:

>=3.7

depends r-argparse:

depends r-base:

4.0.*

depends r-broom:

depends r-ggdendro:

depends r-ggplot2:

depends r-ggpubr:

depends r-gridbase:

depends r-pvclust:

depends r-reshape:

depends r-reshape2:

depends r-stringi:

depends r-tidyverse:

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 fegenie

and update with::

   mamba update fegenie

To create a new environment, run:

mamba create --name myenvname fegenie

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/fegenie:<tag>

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

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