recipe metachip

HGT detection pipeline

Homepage:

https://github.com/songweizhi/MetaCHIP

License:

GPL3 / GPL3+

Recipe:

/metachip/meta.yaml

Links:

doi: 10.1186/s40168-019-0649-y

package metachip

versions:

1.10.13-0,  1.10.12-0,  1.10.10-0,  1.10.9-0,  1.10.8-0,  1.10.6-0,  1.10.5-0,  1.10.4-0,  1.10.3-0, 

1.10.13-0,  1.10.12-0,  1.10.10-0,  1.10.9-0,  1.10.8-0,  1.10.6-0,  1.10.5-0,  1.10.4-0,  1.10.3-0,  1.10.2-0,  1.10.0-0

depends biopython:

<=1.77

depends blast:

depends ete3:

depends fasttree:

depends hmmer:

depends mafft:

depends matplotlib-base:

depends numpy:

depends prodigal:

depends python:

depends r-ape:

depends r-base:

depends r-circlize:

depends r-optparse:

depends reportlab:

depends scipy:

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 metachip

and update with::

   mamba update metachip

To create a new environment, run:

mamba create --name myenvname metachip

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/metachip:<tag>

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

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