API for BIMSBbioinfo/genomation
Summary, annotation and visualization of genomic data

Global functions
AnnotationByFeature-class Man page
AnnotationByGeneParts-class Man page
AnnotationByGeneParts-method Man page
Max_c Man page
Mean_c Man page
Median_c Man page
Min_c Man page
Ops,ScoreMatrix,ScoreMatrix-method Man page
Ops,ScoreMatrixList,ScoreMatrixList-method Man page
Ops,ScoreMatrixList,numeric-method Man page
Ops,numeric,ScoreMatrixList-method Man page
RandomEnrichment-class Man page
ScoreMatrix Man page
ScoreMatrix,GRanges,GRanges-method Man page
ScoreMatrix,RleList,GRanges-method Man page
ScoreMatrix,character,GRanges-method Man page
ScoreMatrix-class Man page
ScoreMatrixBin Man page
ScoreMatrixBin,GRanges,GRanges-method Man page
ScoreMatrixBin,GRanges,GRangesList-method Man page
ScoreMatrixBin,RleList,GRanges-method Man page
ScoreMatrixBin,RleList,GRangesList-method Man page
ScoreMatrixBin,character,GRanges-method Man page
ScoreMatrixBin,character,GRangesList-method Man page
ScoreMatrixList Man page
ScoreMatrixList-class Man page
Sum_c Man page
[,ScoreMatrix,ANY,ANY,ANY-method Man page
[,ScoreMatrix-method Man page
[,ScoreMatrixList,ANY,ANY,ANY-method Man page
[,ScoreMatrixList-method Man page
annotatGrWithGeneParts Man page
annotateWithFeature Man page
annotateWithFeature,GRanges,GRanges-method Man page
annotateWithFeatureFlank Man page
annotateWithFeatureFlank,GRanges,GRanges,GRanges-method Man page
annotateWithFeatures Man page
annotateWithFeatures,GRanges,GRangesList-method Man page
annotateWithFeatures,GRangesList,GRangesList-method Man page
annotateWithGeneParts Man page
annotateWithGeneParts,GRanges,GRangesList-method Man page
annotateWithGeneParts,GRangesList,GRangesList-method Man page
bed12ToExons Man page
bed12ToIntrons Man page
binMatrix Man page
binMatrix,ScoreMatrix-method Man page
binMatrix,ScoreMatrixList-method Man page
binMax Man page
binMean Man page
binMedian Man page
binMin Man page
binSum Man page
binner Man page
c.ScoreMatrix Man page
c.ScoreMatrixList Man page
cage Man page
calculateOverlapSignificance Man page
calculateOverlapSignificance,GRanges,GRanges-method Man page
checkBedValidity Man page
checkClass Man page
compressedAndUrl2temp Man page
constrainRanges Man page
convertBed2Exons Man page
convertBed2Exons,data.frame-method Man page
convertBed2Introns Man page
convertBed2Introns,data.frame-method Man page
convertBedDf Man page
convertBedDf,data.frame-method Man page
cpgi Man page
detectUCSCheader Man page
distance2NearestFeature Man page
enrichmentMatrix Man page
enrichmentMatrix,ScoreMatrix,ScoreMatrix-method Man page
enrichmentMatrix,ScoreMatrixList,ScoreMatrix-method Man page
enrichmentMatrix,ScoreMatrixList,ScoreMatrixList-method Man page
file.ext Man page
findFeatureComb Man page
findFeatureComb,GRangesList-method Man page
galpTo2Ranges Man page
genes Man page
getAssociationWithTSS Man page
getAssociationWithTSS, Man page
getAssociationWithTSS,-methods Man page
getAssociationWithTSS,AnnotationByGeneParts-method Man page
getColors Man page
getFeatsWithTargetsStats Man page
getFeatsWithTargetsStats,AnnotationByFeature-method Man page
getFlanks Man page
getFlanks,GRanges-method Man page
getMembers Man page
getMembers,AnnotationByFeature-method Man page
getRandomEnrichment Man page
getRandomEnrichment,GRanges,GRanges-method Man page
getTargetAnnotationStats Man page
getTargetAnnotationStats,AnnotationByFeature-method Man page
gffToGRanges Man page
heatMatrix Man page
heatMeta Man page
heatTargetAnnotation Man page
intersectScoreMatrixList Man page
intersectScoreMatrixList,ScoreMatrixList-method Man page
listSliceMax Man page
listSliceMean Man page
listSliceMedian Man page
listSliceMin Man page
listSliceSum Man page
multiHeatMatrix Man page
orderBy Man page
orderBy,ScoreMatrixList-method Man page
patternMatrix Man page
patternMatrix,character,DNAStringSet,ANY-method Man page
patternMatrix,character,DNAStringSet-method Man page
patternMatrix,character,GRanges,BSgenome-method Man page
patternMatrix,list,DNAStringSet,ANY-method Man page
patternMatrix,list,DNAStringSet-method Man page
patternMatrix,list,GRanges,BSgenome-method Man page
patternMatrix,matrix,DNAStringSet,ANY-method Man page
patternMatrix,matrix,DNAStringSet-method Man page
patternMatrix,matrix,GRanges,BSgenome-method Man page
plotGeneAnnotation Man page
plotMeta Man page
plotTargetAnnotation Man page
plotTargetAnnotation,AnnotationByFeature-method Man page
promoters Man page
randomizeFeature Man page
randomizeFeature,GRanges-method Man page
read.zip Man page
readBam Man page
readBed Man page
readBigWig Man page
readBroadPeak Man page
readFeatureFlank Man page
readFeatureFlank,character-method Man page
readGeneric Man page
readNarrowPeak Man page
readTableFast Man page
readTranscriptFeatures Man page
readTranscriptFeatures,character-method Man page
scaleScoreMatrix Man page
scaleScoreMatrix,ScoreMatrix-method Man page
scaleScoreMatrixList Man page
scaleScoreMatrixList,ScoreMatrixList-method Man page
show,AnnotationByFeature-method Man page
show,AnnotationByGeneParts-method Man page
show,RandomEnrichment-method Man page
show,ScoreMatrix-method Man page
show,ScoreMatrixList-method Man page
target.type Man page
BIMSBbioinfo/genomation documentation built on May 5, 2019, 10:25 a.m.