recipe bioconductor-rnamodr

Detection of post-transcriptional modifications in high throughput sequencing data

Homepage:

https://bioconductor.org/packages/3.14/bioc/html/RNAmodR.html

License:

Artistic-2.0

Recipe:

/bioconductor-rnamodr/meta.yaml

RNAmodR provides classes and workflows for loading/aggregation data from high througput sequencing aimed at detecting post-transcriptional modifications through analysis of specific patterns. In addition, utilities are provided to validate and visualize the results. The RNAmodR package provides a core functionality from which specific analysis strategies can be easily implemented as a seperate package.

package bioconductor-rnamodr

Versions:

1.8.0-0,  1.6.0-0,  1.4.2-0,  1.4.0-0,  1.2.1-0,  1.0.0-0

Depends:

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-biostrings >=2.62.0,<2.63.0

• bioconductor-bsgenome >=1.62.0,<1.63.0

• 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-gviz >=1.38.0,<1.39.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-modstrings >=1.10.0,<1.11.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-rtracklayer >=1.54.0,<1.55.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• r-base >=4.1,<4.2.0a0

• r-colorramps

• r-ggplot2

• r-matrixstats

• r-rcolorbrewer

• r-reshape2

• r-rocr

Required By:

• bioconductor-rnamodr.ml

• bioconductor-rnamodr.alkanilineseq

• bioconductor-rnamodr.ribomethseq

Installation

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

conda install bioconductor-rnamodr

and update with:

conda update bioconductor-rnamodr

or use the docker container:

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

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

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