API for Chicago
CHiCAGO: Capture Hi-C Analysis of Genomic Organization
| Global functions | |
|---|---|
| .addTLB | Source code |
| .binning | Source code |
| .checkForIncompatibilities | Source code |
| .distFun | Source code |
| .drawSamples | Source code |
| .estimateBMean | Source code |
| .estimateDispersion | Source code |
| .getAvgFragLength | Source code |
| .getEtaBar | Source code |
| .getNoOfHypotheses | Source code |
| .getSampleScalingFactors | Source code |
| .getWeights | Source code |
| .normaliseFragmentSets | Source code |
| .onAttach | Source code |
| .plotNumberOL | Source code |
| .readBaitmap | Source code |
| .readBedList | Source code |
| .readNPBfile | Source code |
| .readNbaitsPBfile | Source code |
| .readProxOEfile | Source code |
| .readRmap | Source code |
| .splitCHiC | Source code |
| .updateSettings | Source code |
| Chicago | Man page |
| Chicago-package | Man page |
| as.dataTableList | Source code |
| cdUnitTest | Man page |
| chicagoData | Man page |
| chicagoPipeline | Man page Source code |
| copyCD | Man page Source code |
| defaultSettings | Man page Source code |
| describeMx | Source code |
| describeNonDefaultSettings | Source code |
| describeVec | Source code |
| describeVecNames | Source code |
| estimateBrownianComponent | Man page Source code |
| estimateBrownianNoise | Man page |
| estimateDistFun | Man page |
| estimateTechnicalNoise | Man page Source code |
| expit | Source code |
| exportResults | Man page Source code |
| exportToGI | Man page Source code |
| geo_mean | Source code |
| getPvals | Man page Source code |
| getScores | Man page Source code |
| getSkOnly | Man page Source code |
| ifnotnull | Source code |
| intData | Man page |
| intData,chicagoData-method | Man page |
| intData<- | Man page |
| intData<-,chicagoData-method | Man page |
| locateFile | Source code |
| logit | Source code |
| mergeSamples | Man page Source code |
| modifySettings | Man page Source code |
| naToInf | Source code |
| normaliseBaits | Man page Source code |
| normaliseOtherEnds | Man page Source code |
| overlapFragWithFeatures | Man page Source code |
| params | Man page |
| params,chicagoData-method | Man page |
| params<- | Man page |
| params<-,chicagoData-method | Man page |
| peakEnrichment4Features | Man page Source code |
| plotBaits | Man page Source code |
| plotDistFun | Man page Source code |
| readAndMerge | Man page Source code |
| readSample | Man page Source code |
| removeNAs | Source code |
| setExperiment | Man page Source code |
| settings | Man page |
| settings,chicagoData-method | Man page |
| wb2b | Source code |
| whichbait2bait | Source code |
