data_integration {BICORN} | R Documentation |
Function 'data_integration' integrates the prior TF-gene binding network and gene expression data together. It will remove any genes missing either TF bindings or gene expression and identify a list of candidate cis-regulatory modules.
data_integration(Binding_matrix = NULL, Binding_TFs = NULL, Binding_genes = NULL, Exp_data, Exp_genes = NULL, Minimum_gene_per_module_regulate = 2)
Binding_matrix |
loaded prior binding network |
Binding_TFs |
loaded transcription factors |
Binding_genes |
loaded genes in the prior binding network |
Exp_data |
loaded properly normalized gene expression data |
Exp_genes |
loaded genes in the gene expression data |
Minimum_gene_per_module_regulate |
the minimum number of genes regulated by each module, used for candidate module filtering. |
# 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)