API for Gviz
Plotting data and annotation information along genomic coordinates

Global functions
.SequenceTrack	Source code
.aggregator	Source code
.alpha	Source code
.arrowBar	Source code
.barsAndLabels	Source code
.bmGuid	Source code
.box2Ellipse	Source code
.boxes	Source code
.cacheGenomes	Source code
.cacheMartData	Source code
.cacheTracks	Source code
.checkClass	Source code
.chooseFace	Source code
.chrName	Source code
.collapseAnnotation	Source code
.collectSchemes	Source code
.computeAlignments	Source code
.computeGroupRange	Source code
.convert.summarizedJunctions.to.sashimi.junctions	Source code
.covDefault	Source code
.create.summarizedJunctions.for.sashimi.junctions	Source code
.deepCopyPars	Source code
.defaultRange	Source code
.defaultVarMap	Source code
.doCache	Source code
.dpOrDefault	Source code
.dpOrDefaultFont	Source code
.expBed	Source code
.expLabel	Source code
.fetchBMData	Source code
.fileExtension	Source code
.filledArrow	Source code
.filledBoxes	Source code
.findMismatches	Source code
.fontGp	Source code
.genome2Dataset	Source code
.getAnn	Source code
.getBMFeatureMap	Source code
.getBiomart	Source code
.getBiotypeColor	Source code
.getCovars	Source code
.getGenomeFromGRange	Source code
.getImageMap	Source code
.getPlottingFeatures	Source code
.getStringDims	Source code
.handleComposite	Source code
.import.2bit	Source code
.import.bam	Source code
.import.bam.alignments	Source code
.import.bw	Source code
.import.fasta	Source code
.import.gff3	Source code
.legendInfo	Source code
.makeParMapping	Source code
.missingToNull	Source code
.moreInd	Source code
.myFindOverlaps	Source code
.needsAxis	Source code
.needsStacking	Source code
.needsTitle	Source code
.onLoad	Source code
.panel.bwplot	Source code
.panel.mountain	Source code
.panel.polygon	Source code
.prepareDtData	Source code
.providerVersion	Source code
.pxResolution	Source code
.ranges2ga	Source code
.recChromosome	Source code
.registerImportFun	Source code
.resize	Source code
.resolveColMapping	Source code
.setAnn	Source code
.setupTextSize	Source code
.strandName	Source code
.supportsAlpha	Source code
.ticks	Source code
.transcriptsAreCollapsed	Source code
.ucsc2Ensembl	Source code
.updateDp	Source code
.updateObj	Source code
.updatePars	Source code
.verticalSpace	Source code
.whichStrand	Source code
AlignedReadTrack	Man page Source code
AlignedReadTrack-class	Man page
AlignmentsTrack	Man page Source code
AlignmentsTrack-class	Man page
AnnotationTrack	Man page Source code
AnnotationTrack-class	Man page
BiomartGeneRegionTrack	Man page Source code
BiomartGeneRegionTrack-class	Man page
CustomTrack	Man page Source code
CustomTrack-class	Man page
DataTrack	Man page Source code
DataTrack-class	Man page
DetailsAnnotationTrack	Man page Source code
DetailsAnnotationTrack-class	Man page
DisplayPars	Man page Source code
DisplayPars-class	Man page
GdObject	Man page
GdObject-class	Man page
GeneRegionTrack	Man page Source code
GeneRegionTrack-class	Man page
GenomeAxisTrack	Man page Source code
GenomeAxisTrack-class	Man page
Gviz-deprecated	Man page
HighlightTrack	Man page Source code
HighlightTrack-class	Man page
IdeogramTrack	Man page Source code
IdeogramTrack-class	Man page
ImageMap	Source code
ImageMap-class	Man page
NumericTrack	Man page
NumericTrack-class	Man page
OverlayTrack	Man page Source code
OverlayTrack-class	Man page
RNASequenceTrack	Man page Source code
RangeTrack	Man page
RangeTrack-class	Man page
ReferenceTrack	Man page
ReferenceTrack-class	Man page
SequenceTrack	Man page Source code
SequenceTrack-class	Man page
StackedTrack	Man page
StackedTrack-class	Man page
UcscTrack	Man page Source code
[	Man page
[,AlignedReadTrack,ANY,ANY,ANY-method	Man page
[,AlignedReadTrack,ANY,ANY-method	Man page
[,AlignedReadTrack-method	Man page
[,AlignmentsTrack,ANY,ANY-method	Man page
[,DataTrack,ANY,ANY,ANY-method	Man page
[,DataTrack,ANY,ANY-method	Man page
[,DataTrack-method	Man page
[,GenomeAxisTrack,ANY,ANY,ANY-method	Man page
[,GenomeAxisTrack,ANY,ANY-method	Man page
[,GenomeAxisTrack-method	Man page
[,IdeogramTrack,ANY,ANY,ANY-method	Man page
[,IdeogramTrack,ANY,ANY-method	Man page
[,IdeogramTrack-method	Man page
[,RangeTrack,ANY,ANY,ANY-method	Man page
[,RangeTrack,ANY,ANY-method	Man page
[,RangeTrack-method	Man page
[,StackedTrack,ANY,ANY,ANY-method	Man page
[,StackedTrack,ANY,ANY-method	Man page
addScheme	Man page Source code
as.list,DisplayPars-method	Man page
as.list,InferredDisplayPars-method	Man page
availableDefaultMapping	Man page Source code
availableDisplayPars	Man page Source code
axTrack	Man page
biomTrack	Man page
biomTrack2	Man page
bmTrack	Man page
bmt	Man page
chromosome	Man page
chromosome,GdObject-method	Man page
chromosome,OverlayTrack-method	Man page
chromosome,RangeTrack-method	Man page
chromosome,SequenceTrack-method	Man page
chromosome<-	Man page
chromosome<-,AlignmentsTrack-method	Man page
chromosome<-,GdObject-method	Man page
chromosome<-,HighlightTrack-method	Man page
chromosome<-,IdeogramTrack-method	Man page
chromosome<-,OverlayTrack-method	Man page
chromosome<-,RangeTrack-method	Man page
chromosome<-,SequenceTrack-method	Man page
clearSessionCache	Man page Source code
coerce,AnnotationTrack,UCSCData-method	Man page
coerce,DNAString,Rle-method	Man page
coerce,DataTrack,data.frame-method	Man page
coerce,DisplayPars,list-method	Man page
coerce,GRanges,AnnotationTrack-method	Man page
coerce,GRanges,DataTrack-method	Man page
coerce,GRanges,GeneRegionTrack-method	Man page
coerce,GRangesList,AnnotationTrack-method	Man page
coerce,GRangesList,GeneRegionTrack-method	Man page
coerce,GeneRegionTrack,UCSCData-method	Man page
coerce,InferredDisplayPars,list-method	Man page
coerce,RNAString,Rle-method	Man page
coerce,RangeTrack,data.frame-method	Man page
coerce,TxDb,GeneRegionTrack-method	Man page
collapseTrack,AnnotationTrack-method	Man page
collapseTrack,DataTrack-method	Man page
collapseTrack,GeneRegionTrack-method	Man page
collapseTrack,GenomeAxisTrack-method	Man page
collapsing	Man page
conservation	Man page
consolidateTrack	Man page
consolidateTrack,AnnotationTrack-method	Man page
consolidateTrack,GdObject-method	Man page
consolidateTrack,HighlightTrack-method	Man page
consolidateTrack,OverlayTrack-method	Man page
consolidateTrack,RangeTrack-method	Man page
consolidateTrack,SequenceTrack-method	Man page
consolidateTrack,StackedTrack-method	Man page
coords	Man page
coords,GdObject-method	Man page
coords,ImageMap-method	Man page
coords,NULL-method	Man page
coverage,AlignedReadTrack-method	Man page
coverage,AlignmentsTrack-method	Man page
cpgIslands	Man page
ctrack	Man page
cyp2b10	Man page
denseAnnTrack	Man page
devDims	Source code
devRes	Source code
displayPars	Man page
displayPars,DisplayPars,character-method	Man page
displayPars,DisplayPars,missing-method	Man page
displayPars,GdObject,character-method	Man page
displayPars,GdObject,missing-method	Man page
displayPars<-	Man page
displayPars<-,DisplayPars,list-method	Man page
displayPars<-,GdObject,list-method	Man page
displayPars<-,HighlightTrack,list-method	Man page
displayPars<-,OverlayTrack,list-method	Man page
drawAxis	Man page
drawAxis,AlignedReadTrack-method	Man page
drawAxis,AlignmentsTrack-method	Man page
drawAxis,DataTrack-method	Man page
drawAxis,GdObject-method	Man page
drawAxis,NumericTrack-method	Man page
drawGD	Man page
drawGD,AlignedReadTrack-method	Man page
drawGD,AlignmentsTrack-method	Man page
drawGD,AnnotationTrack-method	Man page
drawGD,CustomTrack-method	Man page
drawGD,DataTrack-method	Man page
drawGD,DetailsAnnotationTrack-method	Man page
drawGD,GeneRegionTrack-method	Man page
drawGD,GenomeAxisTrack-method	Man page
drawGD,IdeogramTrack-method	Man page
drawGD,OverlayTrack-method	Man page
drawGD,SequenceTrack-method	Man page
drawGD,StackedTrack-method	Man page
drawGrid,AlignedReadTrack-method	Man page
drawGrid,AnnotationTrack-method	Man page
drawGrid,GdObject-method	Man page
drawGrid,NumericTrack-method	Man page
dtHoriz	Man page
end,GenomeAxisTrack-method	Man page
end,IdeogramTrack-method	Man page
end,RangeTrack-method	Man page
end,SequenceTrack-method	Man page
end<-,GenomeAxisTrack-method	Man page
end<-,IdeogramTrack-method	Man page
end<-,RangeTrack-method	Man page
ensGenes	Man page
exon	Man page
exon,GeneRegionTrack-method	Man page
exon<-	Man page
exon<-,GeneRegionTrack,character-method	Man page
exportTracks	Man page Source code
feature	Man page
feature,DataTrack-method	Man page
feature,RangeTrack-method	Man page
feature<-	Man page
feature<-,DataTrack,character-method	Man page
feature<-,RangeTrack,character-method	Man page
from	Man page
gcContent	Man page
gene	Man page
gene,GeneRegionTrack-method	Man page
gene<-	Man page
gene<-,GeneRegionTrack,character-method	Man page
geneDetails	Man page
geneModels	Man page
genome,GdObject-method	Man page
genome,RangeTrack-method	Man page
genome,SequenceTrack-method	Man page
genome<-,GdObject-method	Man page
genome<-,IdeogramTrack-method	Man page
genome<-,RangeTrack-method	Man page
getPar	Man page
getPar,DisplayPars,character-method	Man page
getPar,DisplayPars,missing-method	Man page
getPar,GdObject,character-method	Man page
getPar,GdObject,missing-method	Man page
getScheme	Man page Source code
group	Man page
group,AnnotationTrack-method	Man page
group,GdObject-method	Man page
group,GeneRegionTrack-method	Man page
group<-	Man page
group<-,AnnotationTrack,character-method	Man page
group<-,GeneRegionTrack,character-method	Man page
grouping	Man page
head,InferredDisplayPars-method	Man page
idTrack	Man page
identifier	Man page
identifier,AnnotationTrack-method	Man page
identifier,GeneRegionTrack-method	Man page
identifier<-	Man page
identifier<-,AnnotationTrack,character-method	Man page
identifier<-,GeneRegionTrack,character-method	Man page
ideoTrack	Man page
idxTrack	Man page
imageMap	Man page
imageMap,GdObject-method	Man page
initialize,AlignedReadTrack-method	Man page
initialize,AlignmentsTrack-method	Man page
initialize,AnnotationTrack-method	Man page
initialize,BiomartGeneRegionTrack-method	Man page
initialize,CustomTrack-method	Man page
initialize,DataTrack-method	Man page
initialize,DetailsAnnotationTrack-method	Man page
initialize,DisplayPars-method	Man page
initialize,GdObject-method	Man page
initialize,GeneRegionTrack-method	Man page
initialize,GenomeAxisTrack-method	Man page
initialize,HighlightTrack-method	Man page
initialize,IdeogramTrack-method	Man page
initialize,OverlayTrack-method	Man page
initialize,RangeTrack-method	Man page
initialize,ReferenceAlignmentsTrack-method	Man page
initialize,ReferenceAnnotationTrack-method	Man page
initialize,ReferenceDataTrack-method	Man page
initialize,ReferenceGeneRegionTrack-method	Man page
initialize,ReferenceSequenceTrack-method	Man page
initialize,ReferenceTrack-method	Man page
initialize,SequenceBSgenomeTrack-method	Man page
initialize,SequenceDNAStringSetTrack-method	Man page
initialize,SequenceRNAStringSetTrack-method	Man page
initialize,SequenceTrack-method	Man page
initialize,StackedTrack-method	Man page
isActiveSeq,RangeTrack-method	Man page
isActiveSeq<-,GdObject-method	Man page
itrack	Man page
knownGenes	Man page
length,GenomeAxisTrack-method	Man page
length,HighlightTrack-method	Man page
length,IdeogramTrack-method	Man page
length,OverlayTrack-method	Man page
length,RangeTrack-method	Man page
length,SequenceTrack-method	Man page
max,RangeTrack-method	Man page
min,RangeTrack-method	Man page
names,GdObject-method	Man page
names<-,GdObject,character-method	Man page
plotTracks	Man page Source code
position	Man page
position,IdeogramTrack-method	Man page
position,RangeTrack-method	Man page
range	Man page
range,DataTrack-method	Man page
range,GenomeAxisTrack-method	Man page
range,RangeTrack-method	Man page
ranges,GenomeAxisTrack-method	Man page
ranges,RangeTrack-method	Man page
ranges<-,GenomeAxisTrack-method	Man page
ranges<-,RangeTrack-method	Man page
refGenes	Man page
score,DataTrack-method	Man page
seqinfo,RangeTrack-method	Man page
seqlevels,RangeTrack-method	Man page
seqlevels,SequenceBSgenomeTrack-method	Man page
seqlevels,SequenceDNAStringSetTrack-method	Man page
seqlevels,SequenceRNAStringSetTrack-method	Man page
seqnames,RangeTrack-method	Man page
seqnames,SequenceBSgenomeTrack-method	Man page
seqnames,SequenceDNAStringSetTrack-method	Man page
seqnames,SequenceRNAStringSetTrack-method	Man page
setCoverage,AlignedReadTrack-method	Man page
setPar	Man page
setPar,DisplayPars,character-method	Man page
setPar,DisplayPars,list-method	Man page
setPar,GdObject,character-method	Man page
setPar,GdObject,list-method	Man page
setStacks,AnnotationTrack-method	Man page
setStacks,HighlightTrack-method	Man page
setStacks,OverlayTrack-method	Man page
setStacks,StackedTrack-method	Man page
settings	Man page
show,AlignedReadTrack-method	Man page
show,AlignmentsTrack-method	Man page
show,AnnotationTrack-method	Man page
show,CustomTrack-method	Man page
show,DataTrack-method	Man page
show,DisplayPars-method	Man page
show,GeneRegionTrack-method	Man page
show,GenomeAxisTrack-method	Man page
show,HighlightTrack-method	Man page
show,IdeogramTrack-method	Man page
show,OverlayTrack-method	Man page
show,ReferenceAnnotationTrack-method	Man page
show,ReferenceDataTrack-method	Man page
show,ReferenceGeneRegionTrack-method	Man page
snpLocations	Man page
split,AlignedReadTrack,ANY-method	Man page
split,AlignedReadTrack-method	Man page
split,DataTrack,ANY-method	Man page
split,DataTrack-method	Man page
split,RangeTrack,ANY-method	Man page
split,RangeTrack-method	Man page
stacking	Man page
stacking,StackedTrack-method	Man page
stacking<-	Man page
stacking<-,StackedTrack,character-method	Man page
stacks	Man page
stacks,AlignmentsTrack-method	Man page
stacks,StackedTrack-method	Man page
start,GenomeAxisTrack-method	Man page
start,IdeogramTrack-method	Man page
start,RangeTrack-method	Man page
start,SequenceTrack-method	Man page
start<-,GenomeAxisTrack-method	Man page
start<-,IdeogramTrack-method	Man page
start<-,RangeTrack-method	Man page
strand,DataTrack-method	Man page
strand,GenomeAxisTrack-method	Man page
strand,RangeTrack-method	Man page
strand<-,DataTrack,ANY-method	Man page
strand<-,DataTrack-method	Man page
strand<-,RangeTrack,ANY-method	Man page
subseq,ReferenceSequenceTrack-method	Man page
subseq,SequenceTrack-method	Man page
subset,AlignedReadTrack-method	Man page
subset,AlignmentsTrack-method	Man page
subset,AnnotationTrack-method	Man page
subset,BiomartGeneRegionTrack-method	Man page
subset,DataTrack-method	Man page
subset,GdObject-method	Man page
subset,GenomeAxisTrack-method	Man page
subset,HighlightTrack-method	Man page
subset,IdeogramTrack-method	Man page
subset,OverlayTrack-method	Man page
subset,RangeTrack-method	Man page
subset,ReferenceAlignmentsTrack-method	Man page
subset,ReferenceAnnotationTrack-method	Man page
subset,ReferenceDataTrack-method	Man page
subset,ReferenceGeneRegionTrack-method	Man page
subset,StackedTrack-method	Man page
symbol	Man page
symbol,GeneRegionTrack-method	Man page
symbol<-	Man page
symbol<-,GeneRegionTrack,character-method	Man page
tags	Man page
tags,GdObject-method	Man page
tags,ImageMap-method	Man page
tags,NULL-method	Man page
tail,InferredDisplayPars-method	Man page
to	Man page
transcript	Man page
transcript,GeneRegionTrack-method	Man page
transcript<-	Man page
transcript<-,GeneRegionTrack,character-method	Man page
twoGroups	Man page
values,AlignmentsTrack-method	Man page
values,DataTrack-method	Man page
values,GenomeAxisTrack-method	Man page
values,RangeTrack-method	Man page
values<-,DataTrack-method	Man page
vpLocation	Source code
width,GenomeAxisTrack-method	Man page
width,IdeogramTrack-method	Man page
width,RangeTrack-method	Man page
width,SequenceTrack-method	Man page
width<-,IdeogramTrack-method	Man page
width<-,RangeTrack-method	Man page