API for UMCUGenetics/mutSigExtractor
Extracts SNV, indel, DBS, and SV signatures from vcf files.
| Global functions | |
|---|---|
| .onLoad | Source code |
| DBS_SIGNATURE_PROFILES | Man page |
| INDEL_SIGNATURE_PROFILES | Man page |
| SBS_SIGNATURE_PROFILES_V2 | Man page |
| SBS_SIGNATURE_PROFILES_V3 | Man page |
| SV_SIGNATURE_PROFILES | Man page |
| assignSigPerMut | Man page Source code |
| cosSim | Man page Source code |
| cosSim.data.frame | Man page Source code |
| cosSim.default | Man page Source code |
| cosSim.matrix | Man page Source code |
| detSmnvType | Man page Source code |
| extractSigsDbs | Man page Source code |
| extractSigsIndel | Man page Source code |
| extractSigsIndelChord | Man page Source code |
| extractSigsIndelPcawg | Man page Source code |
| extractSigsSnv | Man page Source code |
| extractSigsSv | Man page Source code |
| fitToSignatures | Man page Source code |
| fitToSignaturesFast | Man page Source code |
| fitToSignaturesFastStrict | Man page Source code |
| fitToSignaturesStrict | Man page Source code |
| getContextsSv | Man page Source code |
| getInfoValues | Man page Source code |
| indelSeqFlanksStartEnd | Man page Source code |
| lsqnonneg | Man page |
| lsqnonneg.data.frame | Man page |
| lsqnonneg.default | Man page Source code |
| lsqnonneg.matrix | Man page Source code |
| nBasesMH | Man page Source code |
| nCopiesAlongFlank | Man page Source code |
| plotContexts | Man page Source code |
| readSigsAsDf | Man page Source code |
| readVcfFields | Man page Source code |
| splitDfRegex | Man page Source code |
| subsetSmnvs | Man page Source code |
| transformContexts | Man page Source code |
| variantsFromVcf | Man page Source code |
