recipe bioconductor-epidecoder

epidecodeR: a functional exploration tool for epigenetic and epitranscriptomic regulation

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-epidecoder/meta.yaml

epidecodeR is a package capable of analysing impact of degree of DNA/RNA epigenetic chemical modifications on dysregulation of genes or proteins. This package integrates chemical modification data generated from a host of epigenomic or epitranscriptomic techniques such as ChIP-seq, ATAC-seq, m6A-seq, etc. and dysregulated gene lists in the form of differential gene expression, ribosome occupancy or differential protein translation and identify impact of dysregulation of genes caused due to varying degrees of chemical modifications associated with the genes. epidecodeR generates cumulative distribution function (CDF) plots showing shifts in trend of overall log2FC between genes divided into groups based on the degree of modification associated with the genes. The tool also tests for significance of difference in log2FC between groups of genes.

package bioconductor-epidecoder

Versions:

1.6.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• r-base >=4.2,<4.3.0a0

• r-dplyr

• r-envstats

• r-ggplot2

• r-ggpubr

• r-rstatix

Required By:

Installation

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

conda install bioconductor-epidecoder

and update with:

conda update bioconductor-epidecoder

or use the docker container:

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

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

Download stats

Link to this page

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