recipe metaphlan2/2.9.0

Metagenomic Phylogenetic Analysis

Homepage

https://bitbucket.org/biobakery/metaphlan2

License

MIT / MIT License

Recipe

/metaphlan2/2.9.0/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 metaphlan2

(downloads) docker_metaphlan2

Versions

2.9.12-0, 2.9.11-0, 2.9.1-0, 2.7.8-0, 2.7.7-4, 2.7.7-3, 2.7.7-2, 2.7.7-1, 2.7.5-1, 2.7.5-0, 2.6.0-2, 2.6.0-1, 2.5.0-2, 2.5.0-0, 2.2.0-1, 2.2.0-0

Depends biom-format

Depends biopython

Depends blast

>=2.6.0

Depends bowtie2

>=2.0.0

Depends dendropy

3.12.3.*

Depends matplotlib

Depends msgpack-python

Depends muscle

>=3.8.1551

Depends numpy

1.14.2.*

Depends pandas

0.22.*

Depends pysam

>=0.8.3

Depends python

2.7.*

Depends raxml

>=8.2.10

Depends requests

Depends samtools

>=0.1.19,<1.0

Depends scipy

Requirements

Installation

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

conda install metaphlan2

and update with:

conda update metaphlan2

or use the docker container:

docker pull quay.io/biocontainers/metaphlan2:<tag>

(see metaphlan2/tags for valid values for <tag>)