API for DiffLogo
DiffLogo: A comparative visualisation of biooligomer motifs
| Global functions | |
|---|---|
| ASN | Man page |
| Alphabet | Man page Source code |
| DNA | Man page |
| FULL_ALPHABET | Man page |
| Letter | Source code |
| RNA | Man page |
| addLastTreeNodeToDistanceMatrix | Source code |
| alignPwmSets | Man page Source code |
| alignmentTree | Source code |
| alignmentTreeLeftRightTriversal | Source code |
| baseDistributionPwm | Man page Source code |
| calculatePvalue | Man page Source code |
| createDiffLogoObject | Man page |
| diffLogo | Man page |
| diffLogoFromPwm | Man page |
| diffLogoTable | Man page |
| diffLogoTableConfiguration | Man page Source code |
| differenceOfICs | Man page Source code |
| divergencePenaltyForUnaligned | Source code |
| drawDiffLogoTable | Man page |
| enrichDiffLogoObjectWithPvalues | Man page Source code |
| enrichDiffLogoTableWithPvalues | Man page Source code |
| extendPwmsFromAlignmentVector | Man page Source code |
| extractNames | Source code |
| findBestShiftForPwmSets | Source code |
| findBestShiftForPwms | Source code |
| getAlphabetFromCharacters | Man page Source code |
| getAlphabetFromSequences | Man page Source code |
| getMarginsDiffLogo | Source code |
| getMarginsSeqLogo | Source code |
| getPwmFromAlignment | Man page Source code |
| getPwmFromAlignmentFile | Man page Source code |
| getPwmFromFastaFile | Man page Source code |
| getPwmFromFile | Man page Source code |
| getPwmFromHomerFile | Man page Source code |
| getPwmFromPfmOrJasparFile | Man page Source code |
| getPwmFromPwmFile | Man page Source code |
| getSequencesFromAlignmentFile | Man page Source code |
| getSequencesFromFastaFile | Man page Source code |
| informationContent | Man page |
| joinTwoNodesInAlignmentTree | Source code |
| localPwmAlignment | Man page Source code |
| lossOfAbsICDifferences | Man page Source code |
| minimumMatrixElementIndexes | Source code |
| multipleLocalPwmsAlignment | Man page Source code |
| normalizePWM | Man page Source code |
| normalizedDifferenceOfProbabilities | Man page Source code |
| preconditionBaseDistribution | Source code |
| preconditionPWM | Source code |
| preconditionPWMSameSize | Source code |
| preconditionProbabilityVector | Source code |
| preconditionStackHeight | Source code |
| preconditionTransformPWM | Source code |
| preconditionVectorSameSize | Source code |
| prepareDiffLogoTable | Man page |
| probabilities | Man page Source code |
| pwmDivergence | Man page Source code |
| pwmsDistanceMatrix | Man page Source code |
| reverseAlignmentVector | Man page Source code |
| seqLogo | Man page |
| shannonDivergence | Man page Source code |
| sumOfAbsICDifferences | Man page Source code |
| sumOfAbsProbabilityDifferences | Man page Source code |
| sumProbabilities | Man page |
| switchDirection | Man page Source code |
| twoSetsAveragePwmDivergenceFromAlignmentVector | Man page Source code |
