COSINE-package          COndition SpecIfic subNEtwork identification
DataSimu                Simulation of the six datasets and the case
                        dataset
GA_search               Use genetic algorithm to search for the
                        globally optimal subnetwork
GA_search_PPI           Run genetic algorithm to search for the PPI
                        sub-network
PPI                     The protein protein interaction network data
Score_adjust_PPI        To adjust the score of the selected PPI
                        sub-network using random sampling
choose_lambda           Choose the most appropriate weight parameter
                        lambda
cond.fyx                Compute the ECF-statistics measuring the
                        differential correlation of gene pairs
diff_gen                Calculate the F-statistics and ECF-statistics
diff_gen_PPI            Generate the scaled node score and scaled edge
                        score for nodes and edges in the background
                        network
diff_gen_for3           Generate the F-statistics and ECF-statistics
                        for the comparison of three datasets
f.test                  To get the F-statistics for each gene
get_components_PPI      Get all the components (connected clusters) of
                        the sub-network
get_quantiles           Get the five quantiles of the weight parameter
                        lambda
get_quantiles_PPI       Get the five quantile values of lambda for
                        analysis of gene expression and PPI network
                        data
random_network_sampling_PPI
                        To sample random sub-network from the PPI data
scaled_edge_score       The scaled ECF statistics of all the edges
scaled_node_score       The scaled ECF-statistics of all the edges
score_scaling           To get the normalzied F-statistics and
                        ECF-statistics
set1_GA                 Result of genetic algorithm search for
                        simulated data set1
set1_scaled_diff        The standardized F-statistics and
                        ECF-statistics for the comparison between
                        simulated data1 and the control data
set1_unscaled_diff      The unstandardized F-statistics and
                        ECF-statistics of simulated dataset 1
simulated_data          The simulated data sets used in the paper
