recipe phame

A tool to derive SNP matrices and phylogenetic tree from raw reads, contigs, and full genomes.

Homepage:

https://github.com/LANL-Bioinformatics/PhaME

License:

GPLV2

Recipe:

/phame/meta.yaml

Links:

biotools: phame

package phame

Versions:

1.0.3-1,  1.0.3-0,  1.0.2-0,  1.0.1-0,  1.0.0-1,  1.0-0

Depends:

• bbmap >=37.62

• bcftools >=1.7

• bowtie2 >=2.3.4.1

• bwa >=0.7.12

• cmake >=3.0.1

• curl >=7.60.0

• fasttree >=2.1.9

• hyphy >=2.3.12

• iqtree >=1.6.7

• mafft >=7.313

• mummer >=3.23

• muscle >=3.8.31

• openmpi >=3.1.0

• paml >=4.9

• perl

• perl-app-cpanminus >=1.7039

• perl-bioperl >=1.7.2

• perl-file-path >=2.12

• perl-getopt-long >=2.50

• perl-io-handle >=1.28

• perl-io-handle >=1.35

• perl-parallel-forkmanager >=1.17

• perl-statistics-distributions >=1.02

• raxml >=8.2.10

• samtools >=1.7

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install phame

and update with:

conda update phame

or use the docker container:

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

(see phame/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/phame/README.html)