API for ste-depo/LowMACA
LowMACA - Low frequency Mutation Analysis via Consensus Alignment
| Global functions | |
|---|---|
| .ClustalChecks | Source code |
| .MAD | Source code |
| .PerlModuleChecks | Source code |
| .Trident_Score | Source code |
| .alnWeights | Source code |
| .checkGene_to_geneID | Source code |
| .clustalMatrix | Source code |
| .clustalOAlign | Source code |
| .filterMAlign | Source code |
| .findPerl | Source code |
| .getGeneMutations | Source code |
| .getLocalGeneMutations | Source code |
| .makeNullProfile | Source code |
| .makeUniformModel | Source code |
| .onLoad | Source code |
| .profileDensity | Source code |
| .profileEntropy | Source code |
| .sampleUnifEntropyL | Source code |
| .sampleUnifEntropyL.old | Source code |
| .scoreMatrix | Source code |
| .shannon | Source code |
| BLOSUM62 | Man page |
| LowMACA | Man page |
| LowMACA-class | Man page |
| LowMACA-package | Man page |
| LowMACA_AML | Man page |
| alignSequences | Man page |
| alignSequences,LowMACA-method | Man page |
| allPfamAnalysis | Man page Source code |
| bpAll | Man page |
| bpAll,LowMACA-method | Man page |
| entropy | Man page |
| entropy,LowMACA-method | Man page |
| getMutations | Man page |
| getMutations,LowMACA-method | Man page |
| lfm | Man page |
| lfm,LowMACA-method | Man page |
| lfmSingleSequence | Man page |
| lfmSingleSequence,LowMACA-method | Man page |
| lmAlignment | Man page |
| lmAlignment,LowMACA-method | Man page |
| lmEntropy | Man page |
| lmEntropy,LowMACA-method | Man page |
| lmMutations | Man page |
| lmMutations,LowMACA-method | Man page |
| lmObj | Man page |
| lmParams | Man page |
| lmParams,LowMACA-method | Man page |
| lmParams<- | Man page |
| lmParams<-,LowMACA-method | Man page |
| lmPlot | Man page |
| lmPlot,LowMACA-method | Man page |
| lmPlotSingleSequence | Man page |
| lmPlotSingleSequence,LowMACA-method | Man page |
| mapMutations | Man page |
| mapMutations,LowMACA-method | Man page |
| newLowMACA | Man page Source code |
| nullProfile | Man page |
| nullProfile,LowMACA-method | Man page |
| parallelize | Man page |
| parallelize,LowMACA-method | Man page |
| parallelize<- | Man page |
| parallelize<-,LowMACA-method | Man page |
| protter | Man page |
| protter,LowMACA-method | Man page |
| setup | Man page |
| setup,LowMACA-method | Man page |
| show,LowMACA-method | Man page |
| showTumorType | Man page Source code |
