recipe pstrain

An Iterative Microbial Strains Profiling Algorithm for Shotgun Metagenomic Sequencing Data

Homepage:

https://github.com/wshuai294/PStrain

License:

MIT

Recipe:

/pstrain/meta.yaml

Links:

biotools: pstrain

package pstrain

versions:

1.0.3-0,  1.0.2-0

depends bowtie2:

depends metaphlan:

4

depends numpy:

depends openjdk:

depends pulp:

depends pysam:

depends python:

>=3.7

depends samtools:

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 pstrain

and update with::

   mamba update pstrain

To create a new environment, run:

mamba create --name myenvname pstrain

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/pstrain:<tag>

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

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