API for LTLA/diffHic
Differential Analysis of Hi-C Data
| Global functions | |
|---|---|
| $,pairParam-method | Man page |
| .addGroup | Source code |
| .addToTotal | Source code |
| .assignBins | Source code |
| .binReads | Source code |
| .check_StrictGI | Source code |
| .compartChr | Source code |
| .createBins | Source code |
| .direct_filter | Source code |
| .editRestrict | Source code |
| .enforcePairOrder | Source code |
| .forgeNewFun | Source code |
| .generalLoopFUN | Source code |
| .get.new.col | Source code |
| .getBinSize | Source code |
| .getInterThreshold | Source code |
| .getPairs | Source code |
| .getStats | Source code |
| .initializeH5 | Source code |
| .isDNaseC | Source code |
| .linkFrag | Source code |
| .linkRaw | Source code |
| .makeEmpty | Source code |
| .minBoundingBox | Source code |
| .neighbor_locales | Source code |
| .neighbor_numbers | Source code |
| .notList | Source code |
| .plotDiag | Source code |
| .prepFreePairs | Source code |
| .processRegionsFrag | Source code |
| .processRegionsRaw | Source code |
| .process_output | Source code |
| .readToBin | Source code |
| .redefineRegions | Source code |
| .restrictRegions | Source code |
| .spawnVertices | Source code |
| .splitByChr | Source code |
| .splitDiscards | Source code |
| .trended_filter | Source code |
| .uniqConcat | Source code |
| .weightedFDR | Source code |
| .writePairs | Source code |
| EMPTY_FUN | Source code |
| RETRIEVAL_FUN | Source code |
| annotatePairs | Man page Source code |
| boxPairs | Man page Source code |
| clusterPairs | Man page Source code |
| compartmentalize | Man page Source code |
| connectCounts | Man page Source code |
| consolidatePairs | Man page Source code |
| correctedContact | Man page Source code |
| cutGenome | Man page Source code |
| diClusters | Man page Source code |
| diffHic | Man page |
| diffHicUsersGuide | Man page Source code |
| domainDirections | Man page Source code |
| emptyGenome | Man page Source code |
| enrichedPairs | Man page Source code |
| extractPatch | Man page Source code |
| filterDiag | Man page Source code |
| filterDirect | Man page Source code |
| filterPeaks | Man page Source code |
| filterTrended | Man page Source code |
| getArea | Man page Source code |
| getPairData | Man page Source code |
| loadChromos | Man page Source code |
| loadData | Man page Source code |
| marginCounts | Man page Source code |
| matchMargins | Man page Source code |
| mergeCMs | Man page Source code |
| mergePairs | Man page Source code |
| neighborCounts | Man page Source code |
| normalizeCNV | Man page Source code |
| pairParam | Man page Source code |
| pairParam-class | Man page |
| plotDI | Man page Source code |
| plotPlaid | Man page Source code |
| preloader | Source code |
| prepPseudoPairs | Man page Source code |
| preparePairs | Man page Source code |
| prunePairs | Man page Source code |
| readMTX2IntSet | Man page Source code |
| reform | Man page |
| reform,pairParam-method | Man page |
| rotDI | Man page Source code |
| rotPlaid | Man page Source code |
| savePairs | Man page Source code |
| segmentGenome | Man page Source code |
| show,pairParam-method | Man page |
| squareCounts | Man page Source code |
| totalCounts | Man page Source code |
