Statistical Testing for ChIP-Seq data sets


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Documentation for package ‘MMDiff’ version 1.8.0

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MMDiff-package Statistical Testing for ChIP-Seq data sets
Cfp1Dists Example DBA object used to illustrate usage of the MMDiff package
Cfp1Profiles Example DBA object used to illustrate usage of the MMDiff package
compHistDists Compute distances between pairs of histograms
detPeakPvals Compute p-values for each peak based on distances between histograms
findOutliers Find peaks with extreme count values
getNormFactors Determine Normalisation factors
getPeakProfiles Add histograms (binned read enrichment profiles) to an existing DBA object
MMDiff Statistical Testing for ChIP-Seq data sets
plotHistDists plot MMD distances
plotPeak plot read enrichment profiles at a specific peak for all specified samples.