Files in DiffLogo

DiffLogo: A comparative visualisation of biooligomer motifs

README.md R/alphabet.R R/seqLogo.R R/pwmAlignment.R R/diffSeqLogoSupport.R R/utilities.R R/diffSeqLogo.R R/preconditions.R R/stackHeights.R R/baseDistrs.R man/getAlphabetFromSequences.Rd man/drawDiffLogoTable.Rd man/getSequencesFromFastaFile.Rd man/getPwmFromFastaFile.Rd man/reverseAlignmentVector.Rd man/getSequencesFromAlignmentFile.Rd man/diffLogoTableConfiguration.Rd man/DNA.Rd man/probabilities.Rd man/diffLogoFromPwm.Rd man/calculatePvalue.Rd man/enrichDiffLogoObjectWithPvalues.Rd man/alignPwmSets.Rd man/localPwmAlignment.Rd man/differenceOfICs.Rd man/multipleLocalPwmsAlignment.Rd man/sumOfAbsICDifferences.Rd man/RNA.Rd man/twoSetsAveragePwmDivergenceFromAlignmentVector.Rd man/getPwmFromPfmOrJasparFile.Rd man/prepareDiffLogoTable.Rd man/seqLogo.Rd man/sumOfAbsProbabilityDifferences.Rd man/getAlphabetFromCharacters.Rd man/pwmDivergence.Rd man/shannonDivergence.Rd man/getPwmFromAlignmentFile.Rd man/enrichDiffLogoTableWithPvalues.Rd man/diffLogo.Rd man/extendPwmsFromAlignmentVector.Rd man/baseDistributionPwm.Rd man/createDiffLogoObject.Rd man/getPwmFromFile.Rd man/normalizedDifferenceOfProbabilities.Rd man/switchDirection.Rd man/Alphabet.Rd man/FULL_ALPHABET.Rd man/getPwmFromHomerFile.Rd man/ASN.Rd man/normalizePWM.Rd man/lossOfAbsICDifferences.Rd man/getPwmFromAlignment.Rd man/pwmsDistanceMatrix.Rd man/getPwmFromPwmFile.Rd man/sumProbabilities.Rd man/informationContent.Rd man/diffLogoTable.Rd tests/testthat.R tests/testthat/test_baseDistributions.R tests/testthat/test_stackHeights.R tests/testthat/test_alignment.R tests/testthat/test_utilities.R inst/doc/DiffLogoBasics.pdf inst/doc/DiffLogoBasics.R