recipe export2graphlan

Conversion software tool for annotating tree with GraPhlAn

Homepage:

https://github.com/segatalab/export2graphlan

License:

MIT / MIT License

Recipe:

/export2graphlan/meta.yaml

export2graphlan is a conversion software tool for producing both annotation and tree file for GraPhlAn. It automatically generate the input tree and the annotation file for GraPhlAn, starting from the input/output of MetaPhlAn, LEfSe, and HUMAnN. It supports also the biom file format. The annotation file will highlight specific sub-trees/clades automatically inferred from input file(s) provided. The two output file of export2graphlan should then be used with GraPhlAn.

package export2graphlan

(downloads) docker_export2graphlan

versions:

0.22-0,  0.20-0,  0.19-2,  0.19-1,  0.19-0

depends hclust2:

depends matplotlib-base:

depends numpy:

depends pandas:

depends python:

2.7.*

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 export2graphlan

and update with::

   mamba update export2graphlan

To create a new environment, run:

mamba create --name myenvname export2graphlan

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/export2graphlan:<tag>

(see `export2graphlan/tags`_ for valid values for ``<tag>``)

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Link to this page

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

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/export2graphlan/README.html)