recipe phyluce

Software for UCE (and general) phylogenomics.

Homepage

https://github.com/faircloth-lab/phyluce

License

BSD

Recipe

/phyluce/meta.yaml

Links

doi: 10.1093/bioinformatics/btv646

package phyluce

Versions

1.6.7-0, 1.6.6-0, 1.6.5-0, 1.6.4-0, 1.6.3-2, 1.6.3-1, 1.6.3-0, 1.6.2-0

Depends

• abyss 1.5.*

• bcftools

• bedtools

• biopython

• bowtie

• bwa

• bx-python

• dendropy 3.*

• gatk 3.8.*

• gblocks

• illumiprocessor

• itero

• lastz

• mafft

• muscle

• pandas

• picard

• pysam

• python >=2.7,<2.8.0a0

• pyvcf

• raxml

• samtools

• seqtk

• spades 3.12.*

• trimal

• trinity 2.1.*

• velvet 1.2.*

Required By

Installation

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

conda install phyluce

and update with:

conda update phyluce

or use the docker container:

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

(see phyluce/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/phyluce/README.html)