recipe bioconductor-ribosomeprofilingqc

Ribosome Profiling Quality Control

Homepage

https://bioconductor.org/packages/3.11/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

1.0.1-0

Depends

• bioconductor-annotationdbi >=1.50.0,<1.51.0

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• bioconductor-biostrings >=2.56.0,<2.57.0

• bioconductor-bsgenome >=1.56.0,<1.57.0

• bioconductor-edaseq >=2.22.0,<2.23.0

• bioconductor-genomeinfodb >=1.24.0,<1.25.0

• bioconductor-genomicalignments >=1.24.0,<1.25.0

• bioconductor-genomicfeatures >=1.40.0,<1.41.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-motifstack >=1.32.0,<1.33.0

• bioconductor-rsamtools >=2.4.0,<2.5.0

• bioconductor-rsubread >=2.2.0,<2.3.0

• bioconductor-rtracklayer >=1.48.0,<1.49.0

• bioconductor-ruvseq >=1.22.0,<1.23.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-xvector >=0.28.0,<0.29.0

• r-base >=4.0,<4.1.0a0

• 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)