SimBindProfiles identifies common and unique binding regions in genome tiling array data. This package does not rely on peak calling, but directly compares binding profiles processed on the same array platform. It implements a simple threshold approach, thus allowing retrieval of commonly and differentially bound regions between datasets as well as events of compensation and increased binding.
|Author||Bettina Fischer, Enrico Ferrero, Robert Stojnic, Steve Russell|
|Date of publication||None|
|Maintainer||Bettina Fischer <firstname.lastname@example.org>|
compensationRegions: Classify two Binding Profiles - Compensation
eSetScatterPlot: Scatterplot of ExpressionSet object
findBoundCutoff: Find the bound.cutoff
increasedBindingRegions: Classify two Binding Profiles - Increased Binding
pairwiseRegions: Classify two Binding Profiles
plotBoundProbes: Plot coloured bound probes
probeAnnoFromESet: Build a probeAnno from ExpressionSet
probeLengthPlot: Plot the probe length frequency
readSgrFiles: Read sgr data
SGR: A Sample Data object
SimBindProfiles-package: Similar Binding Profiles, identifies common and unique...
threewayRegions: Classify three Binding Profiles