This package is for version 3.21 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see dce.
Pathway Enrichment Based on Differential Causal EffectsBioconductor version: Release (3.21)
Compute differential causal effects (dce) on (biological) networks. Given observational samples from a control experiment and non-control (e.g., cancer) for two genes A and B, we can compute differential causal effects with a (generalized) linear regression. If the causal effect of gene A on gene B in the control samples is different from the causal effect in the non-control samples the dce will differ from zero. We regularize the dce computation by the inclusion of prior network information from pathway databases such as KEGG.
Author: Kim Philipp Jablonski [aut, cre] ORCID: 0000-0002-4166-4343 , Martin Pirkl [aut]
Maintainer: Kim Philipp Jablonski <kim.philipp.jablonski at gmail.com>
Citation (from within R, entercitation("dce")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("dce")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("dce")Follow Installation instructions to use this package in your R session.
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