recipe phyloflash

phyloFlash is a pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.

Homepage

https://github.com/HRGV/phyloFlash

License

GPL / GPLv3

Recipe

/phyloflash/meta.yaml

package phyloflash

(downloads) docker_phyloflash

Versions

3.3b1-0, 3.0b1-1, 3.0b1-0, 2.0beta6-0

Depends bbmap

Depends bedtools

Depends emirge

Depends mafft

Depends perl

>=5.13.2

Depends pigz

Depends r-base

Depends r-ggdendro

Depends r-ggplot2

Depends r-gtable

Depends r-optparse

Depends r-reshape2

Depends samtools

Depends spades

Depends vsearch

Requirements

Installation

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

conda install phyloflash

and update with:

conda update phyloflash

or use the docker container:

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

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

Link to this page

Render an install-with-bioconda 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/phyloflash/README.html)