recipe bioconductor-ribosomeprofilingqc

Ribosome Profiling Quality Control

Homepage

https://bioconductor.org/packages/3.13/bioc/html/ribosomeProfilingQC.html

License

GPL (>=3) + file LICENSE

Recipe

/bioconductor-ribosomeprofilingqc/meta.yaml

Ribo-Seq (also named ribosome profiling or footprinting) measures translatome (unlike RNA-Seq, which sequences the transcriptome) by direct quantification of the ribosome-protected fragments (RPFs). This package provides the tools for quality assessment of ribosome profiling. In addition, it can preprocess Ribo-Seq data for subsequent differential analysis.

package bioconductor-ribosomeprofilingqc

Versions

1.4.0-0,  1.2.1-0,  1.2.0-0,  1.0.1-0

Depends

• bioconductor-annotationdbi >=1.54.0,<1.55.0

• bioconductor-biocgenerics >=0.38.0,<0.39.0

• bioconductor-biostrings >=2.60.0,<2.61.0

• bioconductor-bsgenome >=1.60.0,<1.61.0

• bioconductor-edaseq >=2.26.0,<2.27.0

• bioconductor-genomeinfodb >=1.28.0,<1.29.0

• bioconductor-genomicalignments >=1.28.0,<1.29.0

• bioconductor-genomicfeatures >=1.44.0,<1.45.0

• bioconductor-genomicranges >=1.44.0,<1.45.0

• bioconductor-iranges >=2.26.0,<2.27.0

• bioconductor-motifstack >=1.36.0,<1.37.0

• bioconductor-rsamtools >=2.8.0,<2.9.0

• bioconductor-rsubread >=2.6.0,<2.7.0

• bioconductor-rtracklayer >=1.52.0,<1.53.0

• bioconductor-ruvseq >=1.26.0,<1.27.0

• bioconductor-s4vectors >=0.30.0,<0.31.0

• bioconductor-xvector >=0.32.0,<0.33.0

• r-base >=4.1,<4.2.0a0

• r-cluster

• r-ggfittext

• r-ggplot2

• r-ggrepel

• r-scales

Required By

Installation

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

conda install bioconductor-ribosomeprofilingqc

and update with:

conda update bioconductor-ribosomeprofilingqc

or use the docker container:

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

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