ChIPsim: Simulation of ChIP-seq experiments

A general framework for the simulation of ChIP-seq data. Although currently focused on nucleosome positioning the package is designed to support different types of experiments.

AuthorPeter Humburg
Date of publicationNone
MaintainerPeter Humburg <Peter.Humburg@gmail.com>
LicenseGPL (>= 2)
Version1.28.0

View on Bioconductor

Functions

bindDens2readDens Man page
bindLocDens Man page
ChIPsim Man page
ChIPsim-package Man page
decodeQuality Man page
defaultControl Man page
defaultErrorProb Man page
defaultFunctions Man page
defaultGenerator Man page
defaultInit Man page
defaultLastFeat Man page
defaultTransition Man page
distDens Man page
encodeQuality Man page
extractQuality Man page
feat2dens Man page
featureDensity Man page
featureDensity.FuzzyFeature Man page
featureDensity.NFRFeature Man page
featureDensity.ReversePhasedFeature Man page
featureDensity.StableFeature Man page
featureDensity.StablePhasedFeature Man page
fragDens Man page
fuzzyFeature Man page
indNuc Man page
joinRegion Man page
makeFeatures Man page
nfrFeature Man page
noNuc Man page
phasedFeature Man page
phaseNuc Man page
placeFeatures Man page
pos2fastq Man page
readError Man page
readQualitySample Man page
readSequence Man page
reconcileFeatures Man page
reconcileFeatures.default Man page
reconcileFeatures.NucleosomePosition Man page
reconcileFeatures.SimulatedExperiment Man page
sampleFromFile Man page
sampleReads Man page
simChIP Man page
simpleNames Man page
solexaNames Man page
stableDens Man page
stableFeature Man page
writeFASTQ Man page
writeIllumina Man page
writeReads Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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