recipe bioconductor-ribodipa

Differential pattern analysis for Ribo-seq data

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/RiboDiPA.html

License:

LGPL (>= 3)

Recipe:

/bioconductor-ribodipa/meta.yaml

This package performs differential pattern analysis for Ribo-seq data. It identifies genes with significantly different patterns in the ribosome footprint between two conditions. RiboDiPA contains five major components including bam file processing, P-site mapping, data binning, differential pattern analysis and footprint visualization.

package bioconductor-ribodipa

Versions:

1.6.0-0,  1.2.0-2,  1.2.0-1,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-biocfilecache >=2.6.0,<2.7.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-deseq2 >=1.38.0,<1.39.0

• bioconductor-genomicalignments >=1.34.0,<1.35.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-qvalue >=2.30.0,<2.31.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-doparallel

• r-elitism

• r-foreach

• r-ggplot2

• r-matrixstats

• r-rcpp >=1.0.2

• r-reldist

Required By:

Installation

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

conda install bioconductor-ribodipa

and update with:

conda update bioconductor-ribodipa

or use the docker container:

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

(see bioconductor-ribodipa/tags for valid values for <tag>)

Download stats

Link to this page

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[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-ribodipa/README.html)