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SEPIRA

This is the development version of SEPIRA; for the stable release version, see SEPIRA.

Systems EPigenomics Inference of Regulatory Activity

Bioconductor version: Development (3.18)

SEPIRA (Systems EPigenomics Inference of Regulatory Activity) is an algorithm that infers sample-specific transcription factor activity from the genome-wide expression or DNA methylation profile of the sample.

Author: Yuting Chen [aut, cre], Andrew Teschendorff [aut]

Maintainer: Yuting Chen <cytwarmmay at hotmail.com>

Citation (from within R, enter citation("SEPIRA")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("SEPIRA")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews GeneExpression, GeneRegulation, GeneTarget, Network, NetworkInference, Software, Transcription
Version 1.21.0
In Bioconductor since BioC 3.7 (R-3.5) (5.5 years)
License GPL-3
Depends R (>= 3.5.0)
Imports limma(>= 3.32.5), corpcor (>= 1.6.9), parallel (>= 3.3.1), stats
Linking To
Suggests knitr, rmarkdown, testthat, igraph
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary SEPIRA_1.21.0.zip
macOS Binary (x86_64) SEPIRA_1.21.0.tgz
macOS Binary (arm64) SEPIRA_1.21.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SEPIRA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SEPIRA
Bioc Package Browser https://code.bioconductor.org/browse/SEPIRA/
Package Short Url https://bioconductor.org/packages/SEPIRA/
Package Downloads Report Download Stats