NADfinder-package       Call peaks for nucleolar-associated domains
                        (NADs) sequencing data
backgroundCorrection    Correct ratios for background
butterFilter            Low pass filter on ratios by butterworth filter
callPeaks               call peaks for ratios of repeats
countByOverlaps         Count overlapping genomic ranges
cumulativePercentage    Plot the cumulative percentage tag allocation
                        in sample
exportSignals           output signals to file
getCorrelations         get correlations for replicates
groupZscores            Calculate z-scores for each peak
log2ratio               calculate the log2 transformed ratios
log2se                  calculate the log2 transformed ratios for
                        SummarizedExperiment class
peakdet                 Detect peak positions
plotSig                 plot signals with ideograms
single.count            counts data for single experiment of chromosome
                        18
smoothRatiosByChromosome
                        smooth the ratios by chromosome
tileCount               Perform overlap queries between reads and
                        genome by windows
trimPeaks               Trim peaks
triplicates.counts      counts data for triplicates of chromosome 18
zscoreOverBck           Z-scores over the background
