API for mctp/codac
Comprehensive Detection and Analysis of Chimeras
| Global functions | |
|---|---|
| .addCyto | Source code |
| .addExpressionSJ | Source code |
| .addNames | Source code |
| .alignContigsToTranscripts | Source code |
| .alignWrapperBreakpoint | Source code |
| .breakpointValidate | Source code |
| .collapseBreakpoints | Source code |
| .defineBreakpointArtifacts | Source code |
| .dustJunctions | Source code |
| .dustySplit | Source code |
| .fixRanges | Source code |
| .getBam | Source code |
| .getREC | Source code |
| .l2g | Source code |
| .l2g.full | Source code |
| .lgt | Source code |
| .makeCoreAnnotations | Source code |
| .makeFeatures | Source code |
| .makeFrames | Source code |
| .makeGenes | Source code |
| .makeMaskAnnotations | Source code |
| .makeOverlapAnnotations | Source code |
| .makeTranscripts | Source code |
| .mergeJNC | Source code |
| .naTo0 | Source code |
| .naToBlank | Source code |
| .omitBlank | Source code |
| .parseSVs | Source code |
| .positionAlignments | Source code |
| .readBam | Source code |
| .readREC | Source code |
| .readSEQ | Source code |
| .readSJ | Source code |
| .readTAG | Source code |
| .runGmap | Source code |
| .runMinimap2 | Source code |
| .splice.rate | Source code |
| .writeFastas | Source code |
| .writePairFastas | Source code |
| alignBreakpoints | Source code |
| assemble | Source code |
| bsBundle | Source code |
| bsFormat | Source code |
| bsReport | Source code |
| chimeric.sig | Source code |
| config | Source code |
| detect | Source code |
| filterBundle | Source code |
| importBundles | Source code |
| makeBundle | Source code |
| makeDirectory | Source code |
| makeParams | Source code |
| mergeBundles | Source code |
| neo.report | Source code |
| neoReport | Source code |
| qc.report | Source code |
| readCounts | Source code |
| readSplices | Source code |
| report | Source code |
| runDetect | Source code |
| slBundle | Source code |
| slReport | Source code |
| splitBundle | Source code |
| svBundle | Source code |
| svReport | Source code |
| tsBundle | Source code |
| tsReport | Source code |
