API for ddiez/motiftools
Tools to analyze sequence motifs
| Global functions | |
|---|---|
| .checkMax | Source code |
| .generateScoreMatrix | Source code |
| .nw | Source code |
| .sw | Source code |
| MotifCompareResult-class | Man page |
| MotifSearchResult-class | Man page |
| [,MotifSearchResult,ANY-method | Man page |
| [,MotifSearchResult-method | Man page |
| adj_sim | Source code |
| adj_sim_list | Source code |
| align | Man page Source code |
| conservationMatrix | Man page |
| conservationMatrix,AAMultipleAlignment-method | Man page |
| dcor | Man page Source code |
| eud | Man page Source code |
| getFimoAlphabet | Source code |
| getFimoBackground | Source code |
| getFimoCisml | Source code |
| getFimoMotifHits | Source code |
| getFimoMotifInfo | Source code |
| getFimoSequenceInfo | Source code |
| getMastMotifHits | Source code |
| getMastMotifInfo | Source code |
| getMastSequenceInfo | Source code |
| getMemeAlphabet | Source code |
| getMemeAttr | Source code |
| getMemeMotifHits | Source code |
| getMemeMotifProbabilities | Source code |
| getMemeMotifScores | Source code |
| getMemeMotifs | Source code |
| getMemeScannedSiteHits | Source code |
| getMemeSeqStats | Source code |
| getMemeSequences | Source code |
| getMotifArchAdj | Source code |
| getMotifArchDataFrame | Source code |
| getMotifArchSimilarity | Man page Source code |
| getMotifArchString | Man page Source code |
| getMotifCoverage | Man page |
| getMotifCoverage,MotifSearchResult-method | Man page |
| getMotifMatrix | Man page |
| getMotifMatrix,MotifSearchResult-method | Man page |
| getMotifSimilarity | Man page Source code |
| getMotifTotalCoverage | Man page |
| getMotifTotalCoverage,MotifSearchResult-method | Man page |
| getMotifsBySeq | Man page Source code |
| getScoreMatrix | Source code |
| getTomtomAlphabet | Source code |
| getTomtomMotifInfo | Source code |
| getTomtomMotifMatches | Source code |
| getTomtomMotifProbabilities | Source code |
| jaccard_sim | Source code |
| motifAlign | Man page Source code |
| motifDistance | Source code |
| motifNames | Man page Source code |
| motifNames,MotifSearchResult-method | Man page |
| motiftools | Man page |
| motiftools-package | Man page |
| nmotif | Man page Source code |
| nmotif,MotifSearchResult-method | Man page |
| nquery | Man page Source code |
| nquery,MotifCompareResult-method | Man page |
| nseq | Man page Source code |
| nseq,MotifSearchResult-method | Man page |
| ntarget | Man page Source code |
| ntarget,MotifCompareResult-method | Man page |
| nw | Source code |
| plotConservationMatrix | Man page |
| plotConservationMatrix,AAMultipleAlignment-method | Man page |
| plotConservationMatrix,matrix-method | Man page |
| plotMotifArchSimilarity | Man page Source code |
| plotMotifMatches | Man page Source code |
| plotMotifMatrix | Man page |
| plotMotifMatrix,MotifSearchResult-method | Man page |
| plotMotifMatrix,list-method | Man page |
| plotMotifMatrix,matrix-method | Man page |
| pwm | Man page Source code |
| pwm,MotifSearchResult-method | Man page |
| readFIMO | Man page Source code |
| readMAST | Man page Source code |
| readMEME | Man page Source code |
| readTOMTOM | Man page Source code |
| scores | Man page Source code |
| scores,MotifSearchResult-method | Man page |
| sequenceNames | Man page Source code |
| sequenceNames,MotifSearchResult-method | Man page |
| show,MotifCompareResult-method | Man page |
| show,MotifSearchResult-method | Man page |
| sw | Source code |
| vec_sim | Source code |
| vec_sim_list | Source code |
