API for chroGPS
chroGPS2: Generation, visualization and differential analysis of epigenome maps
| Global functions | |
|---|---|
| addVar | Man page Source code |
| adjustPeaks | Man page |
| adjustPeaks,GRangesList-method | Man page |
| adjustPeaks-methods | Man page |
| as.matrix,distGPS-method | Man page |
| avgdistpair | Source code |
| avgdistpair.old | Source code |
| bg3 | Man page |
| bg3.tab | Man page |
| bg3names | Man page |
| boostMDS | Man page Source code |
| changewidth | Source code |
| chisqdist | Source code |
| chisqdist2 | Source code |
| clusGPS | Man page |
| clusGPS,distGPS,mds-method | Man page |
| clusGPS-class | Man page |
| clusGPS-method | Man page |
| clusGPS-methods | Man page |
| clusNames | Man page |
| clusNames,clusGPS-method | Man page |
| clusOverlap | Source code |
| clusterID | Man page |
| clusterID,clusGPS-method | Man page |
| combineGenesMatrix | Man page Source code |
| contour2dDP | Man page Source code |
| d | Man page |
| d.origs | Man page |
| d2 | Man page |
| d3 | Man page |
| diffFactors | Man page Source code |
| diffFactors-methods | Man page |
| diffGenes | Man page Source code |
| diffGenes-methods | Man page |
| distGPS | Man page |
| distGPS,GRangesList-method | Man page |
| distGPS,data.frame-method | Man page |
| distGPS,matrix-method | Man page |
| distGPS-class | Man page |
| distGPS-methods | Man page |
| domainDist | Man page Source code |
| enrichedGO.plot | Source code |
| find.fdr | Man page Source code |
| find.threshold | Man page Source code |
| geneSetGPS | Man page |
| geneSetGPS,data.frame,mds,character-method | Man page |
| geneSetGPS,matrix,mds,character-method | Man page |
| geneSetGPS-methods | Man page |
| getPoints | Man page |
| getPoints,mds-method | Man page |
| getR2 | Man page |
| getR2,mds-method | Man page |
| getStress | Man page |
| getStress,mds-method | Man page |
| getURL | Man page Source code |
| getmodEncodeBS | Source code |
| gff2RDList | Man page Source code |
| gffRead | Source code |
| gps2xgmml | Man page |
| gps2xgmml,mds,ANY-method | Man page |
| gps2xgmml,mds-method | Man page |
| hclust-class | Man page |
| is.adj | Man page |
| is.adj,mds-method | Man page |
| m.origs | Man page |
| mds | Man page |
| mds,distGPS,mds-method | Man page |
| mds,distGPS,missing-method | Man page |
| mds,splitDistGPS,missing-method | Man page |
| mds-class | Man page |
| mds-methods | Man page |
| mergeClusters | Man page |
| mergeClusters,clusGPS-method | Man page |
| mergeClusters,list-method | Man page |
| mergeClusters-methods | Man page |
| mergeReplicateList | Man page Source code |
| mergeReplicateMDS | Man page Source code |
| mergeReplicateMatrix | Man page Source code |
| mergeReplicates | Man page |
| mergeReplicates,GRangesList-method | Man page |
| mergeReplicates,data.frame-method | Man page |
| mergeReplicates,list-method | Man page |
| mergeReplicates,matrix-method | Man page |
| mergeReplicates,mds-method | Man page |
| mergeReplicates-methods | Man page |
| normCoords | Source code |
| pause | Source code |
| pden.adjust | Source code |
| plot,clusGPS,ANY-method | Man page |
| plot,clusGPS-method | Man page |
| plot,mds,ANY-method | Man page |
| plot,mds-method | Man page |
| plotCenters | Source code |
| plotContour | Man page Source code |
| plotDiffGenes | Man page Source code |
| plotTransitions | Source code |
| preCalcGrid | Source code |
| premergeClusters | Source code |
| procrustesAdj | Man page |
| procrustesAdj,mds,distGPS-method | Man page |
| procrustesAdj-methods | Man page |
| profileClusters | Man page Source code |
| profileClusters.old | Source code |
| rankFactorsbyDomain | Man page |
| rankFactorsbyDomain,data.frame-method | Man page |
| rankFactorsbyDomain,distGPS-method | Man page |
| rankFactorsbyDomain,matrix-method | Man page |
| rankFactorsbyDomain-methods | Man page |
| rankFactorsbyProfile | Man page Source code |
| rdldist | Source code |
| realtanipair | Source code |
| realtanipair.old | Source code |
| repliSeq | Man page |
| s2 | Man page |
| s2.tab | Man page |
| s2.wt | Man page |
| s2Seq | Man page |
| s2SeqNames | Man page |
| s2names | Man page |
| show,clusGPS-method | Man page |
| show,distGPS-method | Man page |
| show,mds-method | Man page |
| show,splitDistGPS-method | Man page |
| splidDistGPS-class | Man page |
| splitDistGPS,data.frame-method | Man page |
| splitDistGPS,distGPS-method | Man page |
| splitDistGPS,matrix-method | Man page |
| splitDistGPS-class | Man page |
| splitMDS | Source code |
| stress | Source code |
| subsetMDS | Source code |
| tabClusters | Man page |
| tabClusters,clusGPS-method | Man page |
| toydists | Man page |
| uniqueCount | Man page Source code |
| xgmml2d | Source code |
| xgmml3d | Source code |
