| .annotateAnchors |
Source code
|
| .binmaker |
Source code
|
| .emptyloopsobject |
Source code
|
| .getHumanGenesNoCache |
Source code
|
| .loopPlot |
Source code
|
| .loopsMake |
Source code
|
| .loopsMake.mango |
Source code
|
| .makecombos |
Source code
|
| .mergeAnchors |
Source code
|
| .model_chia |
Source code
|
| .numLoops |
Source code
|
| .subsetLoops |
Source code
|
| .subsetRegion1 |
Source code
|
| .subsetRegion2 |
Source code
|
| .topLoops |
Source code
|
| [,loops,missing,numeric,missing-method |
Man page
|
| [,loops,numeric,missing,missing-method |
Man page
|
| [,loops,numeric,numeric,missing-method |
Man page
|
| addchr |
Man page
|
| addchr,GRanges-method |
Man page
|
| addchr,loops-method |
Man page
|
| annotateAnchors |
Man page
|
| annotateAnchors,loops,GRanges,character,missing-method |
Man page
|
| annotateAnchors,loops,GRanges,character,numeric-method |
Man page
|
| annotateAnchors.bed |
Man page
|
| annotateAnchors.bed,ANY-method |
Man page
|
| annotateAnchors.bigwig |
Man page
|
| annotateAnchors.bigwig,ANY-method |
Man page
|
| annotateLoops |
Man page
|
| annotateLoops,loops,GRanges,GRanges,GRanges-method |
Man page
|
| annotateLoops,loops,missing,GRanges,GRanges-method |
Man page
|
| annotateLoops.dge |
Man page
|
| annotateLoops.dge,ANY-method |
Man page
|
| bedToGRanges |
Man page
|
| bedToGRanges,character-method |
Man page
|
| calcLDSizeFactors |
Man page
|
| calcLDSizeFactors,loops-method |
Man page
|
| callCCDs |
Man page
|
| callCCDs,ANY-method |
Man page
|
| computeBoundaryScores |
Man page
|
| computeBoundaryScores,loops-method |
Man page
|
| diffloop |
Man page
|
| diffloop-package |
Man page
|
| dim,loops-method |
Man page
|
| featureTest |
Man page
|
| featureTest,loops,GRanges-method |
Man page
|
| filterLoops |
Man page
|
| filterLoops,ANY-method |
Man page
|
| filterSpanningLoops |
Man page
|
| filterSpanningLoops,loops,GRanges-method |
Man page
|
| geneinfo |
Man page
|
| getHumanGenes |
Man page
|
| getHumanGenes,character-method |
Man page
|
| getHumanGenes,missing-method |
Man page
|
| getHumanTSS |
Man page
|
| getHumanTSS,character-method |
Man page
|
| getHumanTSS,missing-method |
Man page
|
| getMouseGenes |
Man page
|
| getMouseGenes,character-method |
Man page
|
| getMouseGenes,missing-method |
Man page
|
| getMouseTSS |
Man page
|
| getMouseTSS,character-method |
Man page
|
| getMouseTSS,missing-method |
Man page
|
| head,loops-method |
Man page
|
| human.genes |
Man page
|
| interchromosomal |
Man page
|
| interchromosomal,loops-method |
Man page
|
| intrachromosomal |
Man page
|
| intrachromosomal,loops-method |
Man page
|
| keepCTCFloops |
Man page
|
| keepCTCFloops,loops,GRanges-method |
Man page
|
| keepEPloops |
Man page
|
| keepEPloops,loops,GRanges,GRanges-method |
Man page
|
| loopAssoc |
Man page
|
| loopAssoc,loops-method |
Man page
|
| loopDistancePlot |
Man page
|
| loopDistancePlot,loops-method |
Man page
|
| loopGenes |
Man page
|
| loopGenes,loops,GRanges-method |
Man page
|
| loopGenes,loops,missing-method |
Man page
|
| loopMetrics |
Man page
|
| loopMetrics,loops-method |
Man page
|
| loopPlot |
Man page
|
| loopPlot,loops,GRanges-method |
Man page
|
| loopWidth |
Man page
|
| loopWidth,loops-method |
Man page
|
| loops |
Man page
|
| loops-class |
Man page
|
| loops.small |
Man page
|
| loopsMake |
Man page
|
| loopsMake,ANY-method |
Man page
|
| loopsMake.mango |
Man page
|
| loopsMake.mango,ANY-method |
Man page
|
| loopsSubset |
Man page
|
| loopsSubset,loops,loops-method |
Man page
|
| mangoCorrection |
Man page
|
| mangoCorrection,ANY-method |
Man page
|
| manyLoopPlots |
Man page
|
| manyLoopPlots,loops,GRanges-method |
Man page
|
| mergeAnchors |
Man page
|
| mergeAnchors,loops,numeric,logical-method |
Man page
|
| mergeAnchors,loops,numeric,missing-method |
Man page
|
| numAnchors |
Man page
|
| numAnchors,loops-method |
Man page
|
| numLoops |
Man page
|
| numLoops,loops,missing-method |
Man page
|
| numLoops,loops,numeric-method |
Man page
|
| padGRanges |
Man page
|
| padGRanges,GRanges-method |
Man page
|
| pcaPlot |
Man page
|
| pcaPlot,loops-method |
Man page
|
| plotTopLoops |
Man page
|
| plotTopLoops,loops-method |
Man page
|
| quickAssoc |
Man page
|
| quickAssoc,loops-method |
Man page
|
| quickAssocVoom |
Man page
|
| quickAssocVoom,loops-method |
Man page
|
| removeRegion |
Man page
|
| removeRegion,loops,GRanges-method |
Man page
|
| removeSelfLoops |
Man page
|
| removeSelfLoops,loops-method |
Man page
|
| rmchr |
Man page
|
| rmchr,GRanges-method |
Man page
|
| rmchr,loops-method |
Man page
|
| sampleNames,loops-method |
Man page
|
| sampleNames<-,loops,ANY-method |
Man page
|
| slidingWindowTest |
Man page
|
| slidingWindowTest,loops,numeric,numeric-method |
Man page
|
| splitSamples |
Man page
|
| splitSamples,loops-method |
Man page
|
| subsetLoops |
Man page
|
| subsetLoops,loops,logical-method |
Man page
|
| subsetLoops,loops,numeric-method |
Man page
|
| subsetRegion |
Man page
|
| subsetRegion,loops,GRanges,missing-method |
Man page
|
| subsetRegion,loops,GRanges,numeric-method |
Man page
|
| subsetRegionAB |
Man page
|
| subsetRegionAB,loops,GRanges,GRanges-method |
Man page
|
| summary,loops-method |
Man page
|
| tail,loops-method |
Man page
|
| topLoops |
Man page
|
| topLoops,loops,missing,numeric-method |
Man page
|
| topLoops,loops,numeric,missing-method |
Man page
|
| topLoops,loops,numeric,numeric-method |
Man page
|
| union,loops,loops-method |
Man page
|
| updateLDGroups |
Man page
|
| updateLDGroups,loops-method |
Man page
|
