Man pages for tongyin9002/MICMIC
Methylation regulation network inference with Conditional Mutual information based PC-algorithem

add_edgeadd_edge
CMIConditional Mutual Information
CMI_met_cis_networkConditional mutual information learning the methylation...
delete_edgedelete_edge
entropyentropy
generate_regulator_infogenerate_regulator_info
get_edge_numberget_edge_number
get_nearest_elementsget_nearest_elements This function is to get the neighbour...
get_partnersget_partners
get_sharing_partnersget_sharing_partners
get_vertex_numberget_vertex_number
HNSC_control_idthe sample ids of normal samples in TCGA HNSC dataset
HNSC_exp_data_matrixexpression values of genes in HNSC samples
HNSC_met_data_matrixmethylation values of CpGs in HNSC samples
HNSC_ref_CpGs_bedthe CpGs coordinates in bed format
HNSC_ref_gene_bedthe gene coordinates in bed format
HNSC_sample_classthe classes of samples
HNSC_tumor_idthe sample ids of tumor samples in TCGA HNSC dataset
merge_regulator_infomerge_regulator_info
MIMutual Informaiton
MICMIC_plottingMICMIC_plotting
NetworkNetwork An S4 class to store the network in adjacent matrix
PC_paraparallel PC network construction based on MI/CMI testing
read_adj_matrixread_adj_matrix
STAD_control_idthe sample ids of normal samples in TCGA STAD dataset
STAD_exp_data_matrixexpression values of genes in STAD samples
STAD_met_data_matrixmethylation values of CpGs in STAD samples
STAD_ref_CpGs_bedthe CpGs coordinates in bed format
STAD_ref_gene_bedthe gene coordinates in bed format
STAD_sample_classthe classes of samples
STAD_tumor_idthe sample ids of tumor samples in TCGA STAD dataset
TCGA_HNSC_datamethylation and expression data from TCGA HNSC dataset
TCGA_STAD_datamethylation and expression data from TCGA STAD dataset
test_vertex_pairstest_vertex_pairs
update_edgeupdate_edge
tongyin9002/MICMIC documentation built on Oct. 5, 2017, 3:12 p.m.