recipe bioconductor-ribosomeprofilingqc

Ribosome Profiling Quality Control

Homepage

https://bioconductor.org/packages/3.14/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

1.6.0-0,  1.4.0-0,  1.2.1-0,  1.2.0-0,  1.0.1-0

Depends

• bioconductor-annotationdbi >=1.56.0,<1.57.0

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-biostrings >=2.62.0,<2.63.0

• bioconductor-bsgenome >=1.62.0,<1.63.0

• bioconductor-edaseq >=2.28.0,<2.29.0

• bioconductor-genomeinfodb >=1.30.0,<1.31.0

• bioconductor-genomicalignments >=1.30.0,<1.31.0

• bioconductor-genomicfeatures >=1.46.0,<1.47.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-motifstack >=1.38.0,<1.39.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-rsubread >=2.8.0,<2.9.0

• bioconductor-rtracklayer >=1.54.0,<1.55.0

• bioconductor-ruvseq >=1.28.0,<1.29.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-xvector >=0.34.0,<0.35.0

• 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>)

Download stats

Link to this page

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