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 |
NADfinder | Call peaks for nucleolar-associated domains (NADs) sequencing data |
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 |