recipe squire

Quantitative, locus-specific view of transposable element expression.

Homepage:

https://github.com/wyang17/SQuIRE

License:

GNU

Recipe:

/squire/meta.yaml

package squire

Versions:

0.9.9.92-1,  0.9.9.92-0

Depends:

• bedtools 2.25.0

• bioconductor-biocparallel 1.12.0

• bioconductor-deseq2 1.16.1

• bioconductor-vsn

• igvtools 2.3.93

• pyfaidx

• python 2.7.*

• r-base 3.4.1

• r-ggrepel

• r-hexbin

• r-pheatmap

• samtools 1.1

• star 2.5.3a

• stringtie 1.3.3

• ucsc-bedgraphtobigwig

• ucsc-genepredtobed

• ucsc-genepredtogtf

• ucsc-gtftogenepred

Required By:

Installation

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

conda install squire

and update with:

conda update squire

or use the docker container:

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

(see squire/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/squire/README.html)