BICORN {BICORN} | R Documentation |
BICORN Algorithm Function
Description
Function 'BICORN' infers a posterior module-gene regulatory network by iteratively sampling regulatory strength, transcription factor activity and several key model parameters.
Usage
BICORN(BICORN_input = NULL, L = 100, output_threshold = 10)
Arguments
BICORN_input |
this list structure contains TF symbols, gene symbols and candidate modules |
L |
total rounds of Gibbs Sampling. |
output_threshold |
number of rounds after which we start to record results. |
Examples
# load in the sample data input
data("sample.input")
# Data initialization (Integerate prior binding network and gene expression data)
BICORN_input<-data_integration(Binding_matrix = Binding_matrix, Binding_TFs = Binding_TFs,
Binding_genes = Binding_genes, Exp_data = Exp_data, Exp_genes = Exp_genes,
Minimum_gene_per_module_regulate = 2)
# Infer cis-regulatory modules (TF combinations) and their target genes
BICORN_output<-BICORN(BICORN_input, L = 2, output_threshold = 1)
[Package BICORN version 0.1.0 Index]