Package 'MotIV' - Bioconductor

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32 viewMotifs-methods Examples #####Database and Scores##### path
Index ∗Topic classes alignments-class, 2 filter-class, 9 filters-methods, 10 matches-class, 16 motiv-class, 19 transcriptionFactor-class, 29 ∗Topic methods as.data.frame, 3 combineMotifs, 4 filter, 7 motiv-methods, 20 plot-methods, 21 split-methods, 27 ∗Topic misc exportAsRangedData, 5 exportAsTransfacFile, 6 FOXA1_rGADEM, 10 generateDBScores, 11 getGademPWM, 13 getPWM, 13 jaspar2010, 14 makePWM, 15 motifDistances, 16 motifMatch, 17 occurences, 21 readGademPWMFile, 24 readPWMfile, 24 seqLogo2, 25 setFilter, 26 trimPWMedge, 29 viewAlignments, 30 viewMotifs-methods, 31 [,motiv,ANY,ANY-method (motiv-methods), 20 [,motiv-method (motiv-methods), 20 &,filters,filters-method (filters-methods), 10 alignments-class, 2 as.data.frame, 3 as.data.frame,motiv-method (as.data.frame), 3 as.data.frame-methods (as.data.frame), 3 combineMotifs, 4 combineMotifs,motiv,filters-method (combineMotifs), 4 combineMotifs,motiv,list-method (combineMotifs), 4 combineMotifs-method (combineMotifs), 4 cooccurences (occurences), 21 exportAsRangedData, 5 exportAsTransfacFile, 6 exportAsTransfacFile,list-method (exportAsTransfacFile), 6 exportAsTransfacFile,motiv-method (exportAsTransfacFile), 6 exportAsTransfacFile-methods (exportAsTransfacFile), 6 filter, 7 filter,motiv,filters-method (filter), 7 filter,motiv,list-method (filter), 7 filter-class, 9 filter-methods (filter), 7 filters-methods, 10 FOXA (FOXA1_rGADEM), 10 FOXA1_rGADEM, 10 gadem (FOXA1_rGADEM), 10 generateDBScores, 11 getGademPWM, 13 getPWM, 13 getPWM,motiv-method (getPWM), 13 getPWM-methods (getPWM), 13 jaspar (jaspar2010), 14 jaspar2010, 14 33
Page 1 and 2: Package ‘MotIV’ May 22, 2014 Ty
Page 3 and 4: as.data.frame 3 See Also motiv , ma
Page 5 and 6: exportAsRangedData 5 Examples #####
Page 7 and 8: filter 7 Arguments x file An object
Page 9 and 10: filter-class 9 foxa1.filter.combine
Page 11 and 12: generateDBScores 11 References http
Page 13 and 14: getGademPWM 13 getGademPWM Recover
Page 15 and 16: makePWM 15 Examples #####Database a
Page 17 and 18: motifMatch 17 Arguments Details inp
Page 19 and 20: motiv-class 19 motifs
Page 21 and 22: occurences 21 occurences Motifs Occ
Page 23 and 24: plot-methods 23 Giving a motiv obje
Page 25 and 26: seqLogo2 25 Arguments file Transfac
Page 27 and 28: split-methods 27 Value A filter obj
Page 29 and 30: transcriptionFactor-class 29 transc
Page 31: viewMotifs-methods 31 Examples ####

Package 'MotIV' - Bioconductor

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