Generate RNA-Seq Data from Gene-Gene Association Networks

Methods to generate random gene-gene association networks and simulate RNA-seq data from them. Includes functions to generate random networks of any size and perturb them to obtain differential networks. Network objects are built from individual, overlapping modules that represent pathways. The resulting network has various topological properties that are characteristic of gene regulatory networks. RNA-seq data can be generated such that the association among gene expression profiles reflect the underlying network. A reference RNA-seq dataset can be provided to model realistic marginal distributions. Plotting functions are available to visualize a network, compare two networks, and compare the expression of two genes across multiple networks.


Reference manual

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1.1.0 by Tyler Grimes, a year ago

Browse source code at

Authors: Tyler Grimes [aut, cre] , Somnath Datta [aut]

Documentation:   PDF Manual  

GPL-2 | GPL-3 license

Imports fitdistrplus, ggplot2, grDevices, graphics, igraph, mvtnorm, purrr, RColorBrewer, tibble, Rcpp, rlang, stats, utils, methods

Suggests knitr, rmarkdown, testthat

Linking to Rcpp

Imported by dnapath.

See at CRAN