API for qsea
IP-seq data analysis and vizualization

Global functions
QSEA Man page
addCNV Man page Source code
addContrast Man page Source code
addCoverage Man page Source code
addEnrichmentParameters Man page Source code
addLibraryFactors Man page Source code
addLine Source code
addNewSamples Man page Source code
addOffset Man page Source code
addParameters,qseaGLM-method Man page
addParameters,qseaSet-method Man page
addPatternDensity Man page Source code
addSeqPref Man page Source code
checkSampleTab Source code
checkSamples Source code
createQseaSet Man page Source code
delta Source code
estimateEnrichmentLM Source code
estimateLibraryFactors Source code
estimateMethPois Source code
estimateMethPoisInv Source code
estimateOffset Source code
estimatePatternDensity Source code
estimateQuantilePois Source code
findCNV Source code
findSeqPref Source code
fitEnrichmentProfile Source code
fitNBglm Man page Source code
fitNBglmMatrix Source code
fitNBglmMatrixPart Source code
getCNV Man page
getCNV,qseaSet-method Man page
getChrNames Man page
getChrNames,qseaSet-method Man page
getCounts Man page
getCounts,qseaSet-method Man page
getCoverage Source code
getExampleQseaSet Man page Source code
getFragmentLength Source code
getLibSize Man page
getLibSize,qseaSet-method Man page
getNormFactors Man page
getNormFactors,qseaSet-method Man page
getNormMatrix Source code
getNormalizedValues Source code
getNumPar Source code
getOffset Man page
getOffset,qseaSet-method Man page
getPCA Man page Source code
getParameters Man page
getParameters,qseaGLM-method Man page
getParameters,qseaSet-method Man page
getRegions Man page
getRegions,qseaSet-method Man page
getSampleGroups Man page
getSampleGroups,qseaSet-method Man page
getSampleNames Man page
getSampleNames,qseaGLM-method Man page
getSampleNames,qseaPCA-method Man page
getSampleNames,qseaSet-method Man page
getSampleTable Man page
getSampleTable,qseaSet-method Man page
getWindowSize Man page
getWindowSize,qseaSet-method Man page
getZygosity Man page
getZygosity,qseaSet-method Man page
hasCNV Man page
hasCNV,qseaSet-method Man page
isSignificant Man page Source code
makeGenomeWindows Source code
makeTable Man page Source code
normMethod Man page Source code
plotCNV Man page Source code
plotCoverage Man page Source code
plotEPmatrix Man page Source code
plotEnrichmentProfile Man page Source code
plotPCA Man page
plotPCA,qseaPCA-method Man page
plotPCA.qsea Source code
plotPCAfactors Man page
plotPCAfactors,qseaPCA-method Man page
plotPCAfactors.qsea Source code
qsea Man page
qsea-package Man page
qseaGLM Man page
qseaGLM-class Man page
qseaPCA Man page
qseaPCA-class Man page
qseaSet Man page
qseaSet-class Man page
regionStats Man page Source code
setZygosity Man page
setZygosity,qseaSet-method Man page
show,qseaGLM-method Man page
show,qseaPCA-method Man page
show,qseaSet-method Man page
sigmF Source code
sigmF2 Source code
subdivideRegions Source code
theta_md_matrix Source code
theta_mm_matrix Source code
qsea documentation built on Nov. 1, 2018, 5:05 a.m.