API for MatthiasLienhard/qsea
IP-seq data analysis and vizualization
| Global functions | |
|---|---|
| .delta | Source code |
| .estimateMethPois | Source code |
| .estimateMethPoisInv | Source code |
| .estimateQuantilePois | Source code |
| .fitNBglmMatrixPart | Source code |
| .sigmF | Source code |
| .sigmF2 | Source code |
| 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 |
| estimateEnrichmentLM | Source code |
| estimateLibraryFactors | Source code |
| estimateOffset | Source code |
| estimatePatternDensity | Source code |
| findCNV | Source code |
| findSeqPref | Source code |
| fitEnrichmentProfile | Source code |
| fitNBglm | Man page Source code |
| fitNBglmMatrix | 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 |
| subdivideRegions | Source code |
