GSE6136_cli             GSE6136 cli dataset
GSE6136_matrix          GSE6136 matrix dataset
ILEF                    Chromosome ranges of chr21 dataset
cod                     cod dataset
gencode                 A chr21 data from GENCODE GRCh37
getBiotypes             Assigning Transcript Biotypes
getCTS                  Obtain the identified BioTiP and its length
getCluster_methods      Clustering Network Nodes
getIc                   get Ic score
getMCI                  Calculating MCI Scores
getMaxMCImember         Identifying the 'Biomodule'
getMaxStats             Get the cluster index and network nodes of
                        biomodule
getNetwork              Building Networks of Nodes
getReadthrough          Overlapping Coding Regions
intron                  Coding transcriptome in chr21 dataset
optimize.sd_selection   optimization of sd selection
plotBar_MCI             plot MCI barplots
plotIc                  plot a line plot of Ic scores for each state.
plotMaxMCI              Plot the Maximized MCI per State
plot_Ic_Simulation      line plot of Ic score and simulated Ic scores
plot_MCI_Simulation     Simulation of Loci to Calculate the CI Score
plot_simulation_sample
                        calculating Ic scores based on simulated
                        samples
sd_selection            Selecting Highly Oscillating Transcripts
simulationMCI           Get MCI Scores for Feature Permutation
simulation_Ic           calculating Ic scores based on simulated loci
