geneset_binomialRF {binomialRF}

random forest feature selection based on binomial exact test

Description

binomialRF is the R implementation of the feature selection algorithm by (Zaim 2019)

Usage

geneset_binomialRF(binomialRF_object, gene_ontology, cutoff = 0.2)

Arguments

binomialRF_object

the binomialRF object output

gene_ontology

a two- or three-column representation of a gene ontology with gene and geneset names

cutoff

a real-valued number between 0 and 1, used as a p-value threshold

Value

a data.frame with 4 columns: Geneset Name, P-value, Adjusted P-value based on fdr.method

References

Zaim, SZ; Kenost, C.; Lussier, YA; Zhang, HH. binomialRF: Scalable Feature Selection and Screening for Random Forests to Identify Biomarkers and Their Interactions, bioRxiv, 2019.