recipe cap-mirseq

A comprehensive analysis pipeline for deep microRNA sequencing

Homepage

http://bioinformaticstools.mayo.edu/research/cap-mirseq/

License

GPL

Recipe

/cap-mirseq/meta.yaml

package cap-mirseq

Versions

version-0

Depends

• bedtools >=2.17.0

• bioconductor-edger >=3.14.0

• bowtie >=1.1.2

• fastqc >=0.11.5

• java-jdk

• mirdeep2 >=2.0.0.7

• perl-threaded

• picard >=1.97

• r-base 3.2.2*

• r-essentials

• samtools >=0.1.19

• vcftools >=0.1.11

Required By

Installation

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

conda install cap-mirseq

and update with:

conda update cap-mirseq

or use the docker container:

docker pull quay.io/biocontainers/cap-mirseq:<tag>

(see cap-mirseq/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/cap-mirseq/README.html)