chicWrapper             ChIC analysis in one command
createMetageneProfile   Wrapper function to create scaled and
                        non-scaled metageneprofiles
downsample_ChIPpeaks    Function for downsampling peaks in ChIP-data to
                        simulate failed antibody
getCrossCorrelationScores
                        QC-metrics from cross-correlation profile,
                        phantom peak and general QC-metrics
getPeakCallingScores    Calculating QC-values from peak calling
                        procedure
listAvailableElements   Shows available chromatin marks and factors
listDatasets            Lists the IDs of samples included in the
                        compendium
listMetrics             Lists the metrics available in the compendium
metagenePlotsForComparison
                        Function to create metage plots for comparison
plotReferenceDistribution
                        Function to create reference distribution plot
                        for comparison
predictionScore         Predict score
qualityScores_EM        Wrapper function to calculate EM metrics
qualityScores_GM        Wrapper function to calculate GM metrics from
                        global read distribution
qualityScores_LM        Wrapper function that plots non-scaled profiles
                        for TSS of TES and to collect the QC-metrics
qualityScores_LMgenebody
                        Wrapper function to plot the scaled metagene-
                        profile and to collect the QC-metrics
readBamFile             Read bam file
removeLocalTagAnomalies
                        Removes loval anomalies
tagDensity              Smoothed tag density
