recipe rapid

Read Alignment, Analysis, and Differential Pipeline (RAPID) is a set of tools for the alignment, and analysis of genomic regions with small RNA clusters derived from small RNA sequencing data.

Homepage:

https://github.com/SchulzLab/RAPID

License:

GPL2

Recipe:

/rapid/meta.yaml

package rapid

versions:

1.0-2,  1.0-1,  1.0-0,  0.8-5,  0.8-4,  0.8-3,  0.8-2,  0.8-1,  0.8-0, 

1.0-2,  1.0-1,  1.0-0,  0.8-5,  0.8-4,  0.8-3,  0.8-2,  0.8-1,  0.8-0,  0.7-0,  0.6-0,  0.5-0,  0.4-1,  0.4-0,  0.3-0,  0.2-3,  0.2-2,  0.2-1,  0.2-0,  0.1-0

depends bedtools:

2.23.0

depends bioconductor-deseq2:

depends bowtie2:

2.3.0

depends pandoc:

depends r-base:

depends r-ggplot2:

depends r-gplots:

depends r-knitr:

depends r-rcolorbrewer:

depends r-reshape2:

depends r-rmarkdown:

depends r-scales:

depends r-viridis:

depends samtools:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install rapid

and update with::

   mamba update rapid

To create a new environment, run:

mamba create --name myenvname rapid

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `rapid/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/rapid/README.html)