recipe metaphlan

Metagenomic Phylogenetic Analysis

Homepage

https://github.com/biobakery/metaphlan

License

MIT / MIT License

Recipe

/metaphlan/meta.yaml

MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data with species level resolution. From version 2.0 MetaPhlAn is also able to identify specific strains (in the not-so-frequent cases in which the sample contains a previously sequenced strains) and to track strains across samples for all species.

package metaphlan

Versions

3.0.10-0,  3.0.9-0,  3.0.8-0,  3.0.7-2,  3.0.7-1,  3.0.7-0,  3.0.6-0,  3.0.5-0,  3.0.4-1, 

3.0.10-0,  3.0.9-0,  3.0.8-0,  3.0.7-2,  3.0.7-1,  3.0.7-0,  3.0.6-0,  3.0.5-0,  3.0.4-1,  3.0.4-0,  3.0.3-0,  3.0.2-0,  3.0.1-0,  3.0-4,  3.0-3,  3.0-2,  3.0-1,  3.0-0,  3.0.0.alpha-1,  3.0.0.alpha-0,  2.8.1-1,  2.8.1-0

Depends

• biom-format

• biopython

• blast >=2.6.0

• bowtie2 >=2.3.0

• cmseq

• dendropy

• matplotlib-base

• muscle >=3.8.1551

• numpy

• pandas

• phylophlan

• pysam

• python >=3.7

• raxml >=8.2.10

• requests

• samtools >=1.9

• scipy

Required By

• mosca

• humann

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install metaphlan

and update with:

conda update metaphlan

or use the docker container:

docker pull quay.io/biocontainers/metaphlan:<tag>

(see metaphlan/tags for valid values for <tag>)

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/metaphlan/README.html)