dnapath: Differential Network Analysis using Gene Pathways

Integrates pathway information into the differential network analysis of two gene expression datasets as described in Grimes, Potter, and Datta (2019) <doi:10.1038/s41598-019-41918-3>. Provides summary functions to break down the results at the pathway, gene, or individual connection level. The differential networks for each pathway of interest can be plotted, and the visualization will highlight any differentially expressed genes and all of the gene-gene associations that are significantly differentially connected.

Version: 0.6.7
Depends: R (≥ 4.0)
Imports: Rcpp (≥ 1.0.1), biomaRt, corpcor, igraph, ggplot2, SeqNet, Rdpack, dplyr, tibble, stats, methods, curl, graphics, grDevices, utils
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat (≥ 2.1.0), knitr, rmarkdown, readr, bc3net, DWLasso, huge, GENIE3, minet, reactome.db
Published: 2021-03-18
Author: Tyler Grimes and Somnath Datta
Maintainer: Tyler Grimes <tyler.grimes at unf.edu>
License: GPL-2 | GPL-3
NeedsCompilation: yes
SystemRequirements: C++11
Citation: dnapath citation info
CRAN checks: dnapath results


Reference manual: dnapath.pdf
Vignettes: Introduction to dnapath
Package datasets
Package source: dnapath_0.6.7.tar.gz
Windows binaries: r-devel: dnapath_0.6.7.zip, r-release: dnapath_0.6.7.zip, r-oldrel: not available
macOS binaries: r-release: dnapath_0.6.7.tgz, r-oldrel: not available
Old sources: dnapath archive


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