The binomialRF package is an R package that provides a feature selection algorithm to be used in randomForest classifiers. Treating each tree as a quasi binomial stochastic process in a random forest, binomialRF determines a feature’s importance by how often they are selected in practice vs. as expected by random chance. Given that trees are co-dependent as they subsample the same data, a theoretical adjustment is made using a generalization of the binomial distribution that adds a parameter to model correlation/association between trials.
The binomialRF R package is on CRAN, and you can install as follows:
install.packages('binomialRF')The CRAN version will always be the most stable release.
To install experimental updates from the binomialRF , install it from GitHub directly, follow the code instructions below!
install.packages("devtools")
# The following dependencies might need to be installed
# manually if they're not installed by devtools.
install.packages(c("ggplot2", "randomForest", "data.table","rlist", "correlbinom"))
devtools::install_github("SamirRachidZaim/binomialRF")
library(binomialRF)These GitHub updates and features are experimental and will not be available in the CRAN version until the next, stable release is pushed.
The main manuscript is included as a preprint in bioRxiv: https://doi.org/10.1101/681973, and has also been submitted for consideration at Frontiers in Genetics.