AUC, Matrix, data.table, dplyr, Rcpp, methods, foreach,
doParallel, RColorBrewer
Sumanta Basu and Karl Kumbier (based on source codes from the R packages FSInteract by Hyun Jik Kim and Rajen D. Shah, randomForest by Andy Liaw and Matthew Wiener, and the original Fortran codes by Leo Breiman and Adele Cutler)
Iteratively grows feature weighted random forests and finds high-order feature interactions in a stable fashion.

Integrative Random Forest for Gene Regulatory Network Inference
c(person("Francesca Petralia", "Developer", role = c("aut", "cre"),
email = "francesca.petralia@mssm.edu"),
person("Pei Wang", "Developer", role = "aut"),
person("Zhidong Tu", "Developer", role = "aut"),
person("Jialiang Yang", "Developer", role = "aut"),
person("Adele Cutler", "Developer", role = "ctb"),
person("Leo Breiman", "Developer", role = "ctb"),
person("Andy Liaw", "Developer", role = "ctb"),
person("Matthew Wiener", "Developer", role = "ctb"))
Provides a flexible integrative algorithm that allows information from prior data, such as protein protein interactions and gene knock-down, to be jointly considered for gene regulatory network inference.
Francesca Petralia Developer [aut, cre],
Pei Wang Developer [aut],
Zhidong Tu Developer [aut],
Jialiang Yang Developer [aut],
Adele Cutler Developer [ctb],
Leo Breiman Developer [ctb],
Andy Liaw Developer [ctb],
Matthew Wiener Developer [ctb]

c(person("Francesca", "Petralia", role = c("aut", "cre"),
email = "francesca.petralia@mssm.edu"),
person("Pei", "Wang", role = "aut"),
person("Zhidong", "Tu", role = "aut"),
person("Jialiang", "Yang", role = "aut"),
person("Adele", "Cutler", role = "ctb"),
person("Leo", "Breiman", role = "ctb"),
person("Andy", "Liaw", role = "ctb"),
person("Matthew", "Wiener", role = "ctb"))
Francesca Petralia [aut, cre],
Pei Wang [aut],
Zhidong Tu [aut],
Jialiang Yang [aut],
Adele Cutler [ctb],
Leo Breiman [ctb],
Andy Liaw [ctb],
Matthew Wiener [ctb]

"iRefR" allows the user to load any version of the
consolidated protein interaction database "iRefIndex" and
perform tasks such as: selecting databases, pmids, experimental
methods, searching for specific proteins, separate binary
interactions from complexes and polymers, generate complexes
according to an algorithm that looks after possible
binary-represented complexes, make general database statistics
and create network graphs, among others.
Antonio Mora <a.m.ortiz@biotek.uio.no>, Ian Donaldson
<i.m.donaldson@biotek.uio.no>