API for mcieslik-mctp/cnvex
CNVex
| Global functions | |
|---|---|
| .absMedDiff | Source code |
| .addJointSeg | Source code |
| .annotateTiles | Source code |
| .baf.grid.MC | Source code |
| .correctGC | Source code |
| .coverageFilter | Source code |
| .coverageFilterSel | Source code |
| .createPool | Source code |
| .detect.offset | Source code |
| .detect.sex | Source code |
| .dtRound | Source code |
| .filterGenomeGermlineHets | Source code |
| .filterGenomeTargetGermlineHets | Source code |
| .filterGermlineHets | Source code |
| .filterTargetGermlineHets | Source code |
| .fixLogRatioBounds | Source code |
| .gcLogRatio | Source code |
| .geneCSV | Source code |
| .getBaf | Source code |
| .getGenomeHits | Source code |
| .getHits | Source code |
| .getTargetHits | Source code |
| .importHC | Source code |
| .importPoolData | Source code |
| .importVarDict | Source code |
| .importVcf | Source code |
| .importVcfHC | Source code |
| .importVcfVarDict | Source code |
| .jointSegArm | Source code |
| .len.penalty | Source code |
| .llik.rC.p.D.inner | Source code |
| .log.sum.exp | Source code |
| .lr.grid.pD | Source code |
| .lr.grid.rC | Source code |
| .medianCoverage | Source code |
| .medianLogRatio | Source code |
| .medianLogRatioSel | Source code |
| .mergeBreakpoints | Source code |
| .normCoverage | Source code |
| .outlierMask | Source code |
| .outlierMaskSel | Source code |
| .poolFakeCoverage | Source code |
| .poolFilter | Source code |
| .poolIcaDenoise | Source code |
| .poolPcaDenoise | Source code |
| .priorC | Source code |
| .priorK | Source code |
| .rawLogRatio | Source code |
| .robust.import | Source code |
| .runCBS | Source code |
| .runJointSeg | Source code |
| .runMosdepth | Source code |
| .runMosdepthMulti | Source code |
| .runMosdepthTile | Source code |
| .runSmooth | Source code |
| .scaleLogRatio | Source code |
| .smoothLogRatio | Source code |
| .smoothOutliers | Source code |
| .zeroFilter | Source code |
| .zeroFilterSel | Source code |
| addBaf | Source code |
| addCopy | Source code |
| addCoverage | Source code |
| addFakeLogRatio | Source code |
| addGcLogRatio | Source code |
| addGene | Source code |
| addIcaLogRatio | Source code |
| addJointSegment | Source code |
| addLogRatio | Source code |
| addPairLogRatio | Source code |
| addPcaLogRatio | Source code |
| addScaleLogRatio | Source code |
| addSegment | Source code |
| addSmoothLogRatio | Source code |
| analyze | Source code |
| bafData | Source code |
| cnvex | Man page |
| cnvex-package | Man page |
| covData | Source code |
| covGrid | Source code |
| createPool | Source code |
| fixCand | Source code |
| getCand | Source code |
| getOpts | Source code |
| importCNVEX | Source code |
| importVcf | Source code |
| load | Source code |
| max.na.rm | Source code |
| optCand | Source code |
| plot | Source code |
| plotCNV | Source code |
| pool | Source code |
| resolveConfig | Source code |
| tocsv | Source code |
