recipe panphlan

PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition and *in-vivo* transcriptional activity of individual strains in metagenomic samples.

Homepage:

http://github.com/SegataLab/panphlan/

License:

MIT / MIT

Recipe:

/panphlan/meta.yaml

package panphlan

versions:

3.1-0,  3.0-0,  1.3-1,  1.3-0,  1.2-6,  1.2-5,  1.2-4,  1.2-3

depends bowtie2:

>=2.3.0

depends numpy:

depends pandas:

depends python:

>=3.7

depends samtools:

>=1.9

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 panphlan

and update with::

   mamba update panphlan

To create a new environment, run:

mamba create --name myenvname panphlan

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/panphlan:<tag>

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

Download stats

Link to this page

Render an 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/panphlan/README.html)