Package Recipe 'bioconductor-prebs'

recipe bioconductor-prebs¶

The prebs package aims at making RNA-sequencing (RNA-seq) data more comparable to microarray data. The comparability is achieved by summarizing sequencing-based expressions of probe regions using a modified version of RMA algorithm. The pipeline takes mapped reads in BAM format as an input and produces either gene expressions or original microarray probe set expressions as an output.

Homepage: https://bioconductor.org/packages/3.9/bioc/html/prebs.html
License: Artistic-2.0
Recipe: /bioconductor-prebs/meta.yaml
Links: biotools: prebs

package bioconductor-prebs¶

Versions: 1.22.0-0, 1.20.0-0, 1.18.0-0
Depends bioconductor-affy: >=1.60.0,<1.61.0
Depends bioconductor-biobase: >=2.42.0,<2.43.0
Depends bioconductor-genomeinfodb: >=1.18.0,<1.19.0
Depends bioconductor-genomicalignments: >=1.18.0,<1.19.0
Depends bioconductor-genomicranges: >=1.34.0,<1.35.0
Depends bioconductor-iranges: >=2.16.0,<2.17.0
Depends bioconductor-rpa: >=1.38.0,<1.39.0
Depends bioconductor-s4vectors: >=0.20.0,<0.21.0
Depends r-base: >=3.5.1,<3.5.2.0a0
Requirements

Installation

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

conda install bioconductor-prebs

and update with:

conda update bioconductor-prebs

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-prebs:<tag>

(see bioconductor-prebs/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/bioconductor-prebs/README.html)