A B C D E F G H I K L M N O P R S T U V W misc
addScheme | Setting display parameters to control the look and feel of the plots |
AlignedReadTrack | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
AlignedReadTrack-class | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
AlignmentsTrack | AlignmentsTrack class and methods |
AlignmentsTrack-class | AlignmentsTrack class and methods |
AnnotationTrack | AnnotationTrack class and methods |
AnnotationTrack-class | AnnotationTrack class and methods |
as.list-method | DisplayPars class and method |
availableDefaultMapping | ReferenceTrack class and methods |
availableDisplayPars | DisplayPars class and method |
axTrack | Data sets |
BiomartGeneRegionTrack | BiomartGeneRegionTrack class and methods |
BiomartGeneRegionTrack-class | BiomartGeneRegionTrack class and methods |
biomTrack | Data sets |
bmt | Data sets |
bmTrack | Data sets |
chromosome | RangeTrack class and methods |
chromosome-method | GdObject class and methods |
chromosome-method | RangeTrack class and methods |
chromosome-method | SequenceTrack class and methods |
chromosome<- | RangeTrack class and methods |
chromosome<--method | AlignmentsTrack class and methods |
chromosome<--method | GdObject class and methods |
chromosome<--method | HighlightTrack class and methods |
chromosome<--method | IdeogramTrack class and methods |
chromosome<--method | OverlayTrack class and methods |
chromosome<--method | RangeTrack class and methods |
chromosome<--method | SequenceTrack class and methods |
clearSessionCache | Meta-constructor for GenomeGraph tracks fetched directly from the various UCSC data sources. |
coerce-method | AnnotationTrack class and methods |
coerce-method | DataTrack class and methods |
coerce-method | DisplayPars class and method |
coerce-method | GeneRegionTrack class and methods |
coerce-method | RangeTrack class and methods |
coerce-method | SequenceTrack class and methods |
collapseTrack-method | AnnotationTrack class and methods |
collapseTrack-method | DataTrack class and methods |
collapseTrack-method | GeneRegionTrack class and methods |
collapseTrack-method | GenomeAxisTrack class and methods |
collapsing | Dynamic content based on the available resolution |
conservation | Data sets |
consolidateTrack | GdObject class and methods |
consolidateTrack-method | AnnotationTrack class and methods |
consolidateTrack-method | GdObject class and methods |
consolidateTrack-method | HighlightTrack class and methods |
consolidateTrack-method | OverlayTrack class and methods |
consolidateTrack-method | RangeTrack class and methods |
consolidateTrack-method | SequenceTrack class and methods |
consolidateTrack-method | StackedTrack class and methods |
coords | GdObject class and methods |
coords-method | GdObject class and methods |
coords-method | ImageMap class and methods |
coverage-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
coverage-method | AlignmentsTrack class and methods |
cpgIslands | Data sets |
ctrack | Data sets |
CustomTrack | CustomTrack class and methods |
CustomTrack-class | CustomTrack class and methods |
cyp2b10 | Data sets |
DataTrack | DataTrack class and methods |
DataTrack-class | DataTrack class and methods |
denseAnnTrack | Data sets |
DetailsAnnotationTrack | AnnotationTrack class and methods |
DetailsAnnotationTrack-class | AnnotationTrack class and methods |
DisplayPars | DisplayPars class and method |
displayPars | DisplayPars class and method |
DisplayPars-class | DisplayPars class and method |
displayPars-method | DisplayPars class and method |
displayPars-method | GdObject class and methods |
displayPars<- | DisplayPars class and method |
displayPars<--method | DisplayPars class and method |
displayPars<--method | GdObject class and methods |
displayPars<--method | HighlightTrack class and methods |
displayPars<--method | OverlayTrack class and methods |
drawAxis-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
drawAxis-method | AlignmentsTrack class and methods |
drawAxis-method | DataTrack class and methods |
drawAxis-method | GdObject class and methods |
drawAxis-method | NumericTrack class and methods |
drawGD | GdObject class and methods |
drawGD-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
drawGD-method | AlignmentsTrack class and methods |
drawGD-method | AnnotationTrack class and methods |
drawGD-method | CustomTrack class and methods |
drawGD-method | DataTrack class and methods |
drawGD-method | GdObject class and methods |
drawGD-method | GenomeAxisTrack class and methods |
drawGD-method | IdeogramTrack class and methods |
drawGD-method | OverlayTrack class and methods |
drawGD-method | StackedTrack class and methods |
drawGrid-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
drawGrid-method | AnnotationTrack class and methods |
drawGrid-method | GdObject class and methods |
drawGrid-method | NumericTrack class and methods |
dtHoriz | Data sets |
end-method | GenomeAxisTrack class and methods |
end-method | IdeogramTrack class and methods |
end-method | RangeTrack class and methods |
end-method | SequenceTrack class and methods |
end<--method | GenomeAxisTrack class and methods |
end<--method | IdeogramTrack class and methods |
end<--method | RangeTrack class and methods |
ensGenes | Data sets |
exon | GeneRegionTrack class and methods |
exon-method | GeneRegionTrack class and methods |
exon<- | GeneRegionTrack class and methods |
exon<--method | GeneRegionTrack class and methods |
exportTracks | Export GenomeGraph tracks to a annotation file representation. |
feature | RangeTrack class and methods |
feature-method | DataTrack class and methods |
feature-method | RangeTrack class and methods |
feature<- | RangeTrack class and methods |
feature<--method | DataTrack class and methods |
feature<--method | RangeTrack class and methods |
from | Data sets |
gcContent | Data sets |
GdObject | GdObject class and methods |
GdObject-class | GdObject class and methods |
gene | GeneRegionTrack class and methods |
gene-method | GeneRegionTrack class and methods |
gene<- | GeneRegionTrack class and methods |
gene<--method | GeneRegionTrack class and methods |
geneDetails | Data sets |
geneModels | Data sets |
GeneRegionTrack | GeneRegionTrack class and methods |
GeneRegionTrack-class | GeneRegionTrack class and methods |
genome-method | RangeTrack class and methods |
genome-method | SequenceTrack class and methods |
genome<--method | GdObject class and methods |
genome<--method | IdeogramTrack class and methods |
genome<--method | RangeTrack class and methods |
GenomeAxisTrack | GenomeAxisTrack class and methods |
GenomeAxisTrack-class | GenomeAxisTrack class and methods |
getPar | DisplayPars class and method |
getPar-method | DisplayPars class and method |
getPar-method | GdObject class and methods |
getScheme | Setting display parameters to control the look and feel of the plots |
group | AnnotationTrack class and methods |
group-method | AnnotationTrack class and methods |
group-method | GdObject class and methods |
group-method | GeneRegionTrack class and methods |
group<- | AnnotationTrack class and methods |
group<--method | AnnotationTrack class and methods |
group<--method | GeneRegionTrack class and methods |
grouping | Grouping of annotation features |
head-method | DisplayPars class and method |
HighlightTrack | HighlightTrack class and methods |
HighlightTrack-class | HighlightTrack class and methods |
identifier | AnnotationTrack class and methods |
identifier-method | AnnotationTrack class and methods |
identifier-method | GeneRegionTrack class and methods |
identifier<- | AnnotationTrack class and methods |
identifier<--method | AnnotationTrack class and methods |
identifier<--method | GeneRegionTrack class and methods |
IdeogramTrack | IdeogramTrack class and methods |
IdeogramTrack-class | IdeogramTrack class and methods |
ideoTrack | Data sets |
idTrack | Data sets |
idxTrack | Data sets |
imageMap | GdObject class and methods |
ImageMap-class | ImageMap class and methods |
imageMap-method | GdObject class and methods |
initialize-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
initialize-method | AlignmentsTrack class and methods |
initialize-method | AnnotationTrack class and methods |
initialize-method | BiomartGeneRegionTrack class and methods |
initialize-method | CustomTrack class and methods |
initialize-method | DataTrack class and methods |
initialize-method | DisplayPars class and method |
initialize-method | GdObject class and methods |
initialize-method | GeneRegionTrack class and methods |
initialize-method | GenomeAxisTrack class and methods |
initialize-method | HighlightTrack class and methods |
initialize-method | IdeogramTrack class and methods |
initialize-method | OverlayTrack class and methods |
initialize-method | RangeTrack class and methods |
initialize-method | ReferenceTrack class and methods |
initialize-method | SequenceTrack class and methods |
initialize-method | StackedTrack class and methods |
isActiveSeq-method | RangeTrack class and methods |
isActiveSeq<--method | GdObject class and methods |
itrack | Data sets |
knownGenes | Data sets |
length-method | GenomeAxisTrack class and methods |
length-method | HighlightTrack class and methods |
length-method | IdeogramTrack class and methods |
length-method | OverlayTrack class and methods |
length-method | RangeTrack class and methods |
length-method | SequenceTrack class and methods |
max-method | RangeTrack class and methods |
min-method | RangeTrack class and methods |
names-method | GdObject class and methods |
names<--method | GdObject class and methods |
NumericTrack | NumericTrack class and methods |
NumericTrack-class | NumericTrack class and methods |
OverlayTrack | OverlayTrack class and methods |
OverlayTrack-class | OverlayTrack class and methods |
plotTracks | The main plotting function for one or several GenomeGraph tracks. |
position | RangeTrack class and methods |
position-method | IdeogramTrack class and methods |
position-method | RangeTrack class and methods |
range | RangeTrack class and methods |
range-method | DataTrack class and methods |
range-method | GenomeAxisTrack class and methods |
range-method | RangeTrack class and methods |
ranges-method | GenomeAxisTrack class and methods |
ranges-method | RangeTrack class and methods |
ranges<--method | GenomeAxisTrack class and methods |
ranges<--method | RangeTrack class and methods |
RangeTrack | RangeTrack class and methods |
RangeTrack-class | RangeTrack class and methods |
ReferenceTrack | ReferenceTrack class and methods |
ReferenceTrack-class | ReferenceTrack class and methods |
refGenes | Data sets |
score-method | DataTrack class and methods |
seqinfo-method | RangeTrack class and methods |
seqlevels-method | RangeTrack class and methods |
seqlevels-method | SequenceTrack class and methods |
seqnames-method | RangeTrack class and methods |
seqnames-method | SequenceTrack class and methods |
SequenceTrack | SequenceTrack class and methods |
SequenceTrack-class | SequenceTrack class and methods |
setCoverage-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
setPar | DisplayPars class and method |
setPar-method | DisplayPars class and method |
setPar-method | GdObject class and methods |
setStacks-method | AnnotationTrack class and methods |
setStacks-method | HighlightTrack class and methods |
setStacks-method | OverlayTrack class and methods |
setStacks-method | StackedTrack class and methods |
settings | Setting display parameters to control the look and feel of the plots |
show-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
show-method | AlignmentsTrack class and methods |
show-method | AnnotationTrack class and methods |
show-method | CustomTrack class and methods |
show-method | DataTrack class and methods |
show-method | DisplayPars class and method |
show-method | GeneRegionTrack class and methods |
show-method | GenomeAxisTrack class and methods |
show-method | HighlightTrack class and methods |
show-method | IdeogramTrack class and methods |
show-method | OverlayTrack class and methods |
snpLocations | Data sets |
split-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
split-method | DataTrack class and methods |
split-method | RangeTrack class and methods |
StackedTrack | StackedTrack class and methods |
StackedTrack-class | StackedTrack class and methods |
stacking | StackedTrack class and methods |
stacking-method | StackedTrack class and methods |
stacking<- | StackedTrack class and methods |
stacking<--method | StackedTrack class and methods |
stacks | StackedTrack class and methods |
stacks-method | AlignmentsTrack class and methods |
stacks-method | StackedTrack class and methods |
start-method | GenomeAxisTrack class and methods |
start-method | IdeogramTrack class and methods |
start-method | RangeTrack class and methods |
start-method | SequenceTrack class and methods |
start<--method | GenomeAxisTrack class and methods |
start<--method | IdeogramTrack class and methods |
start<--method | RangeTrack class and methods |
strand-method | DataTrack class and methods |
strand-method | GenomeAxisTrack class and methods |
strand-method | RangeTrack class and methods |
strand<--method | DataTrack class and methods |
strand<--method | RangeTrack class and methods |
subseq-method | SequenceTrack class and methods |
subset-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
subset-method | AlignmentsTrack class and methods |
subset-method | AnnotationTrack class and methods |
subset-method | BiomartGeneRegionTrack class and methods |
subset-method | DataTrack class and methods |
subset-method | GdObject class and methods |
subset-method | GeneRegionTrack class and methods |
subset-method | GenomeAxisTrack class and methods |
subset-method | HighlightTrack class and methods |
subset-method | IdeogramTrack class and methods |
subset-method | OverlayTrack class and methods |
subset-method | RangeTrack class and methods |
subset-method | StackedTrack class and methods |
symbol | GeneRegionTrack class and methods |
symbol-method | GeneRegionTrack class and methods |
symbol<- | GeneRegionTrack class and methods |
symbol<--method | GeneRegionTrack class and methods |
tags | GdObject class and methods |
tags-method | GdObject class and methods |
tags-method | ImageMap class and methods |
tail-method | DisplayPars class and method |
to | Data sets |
transcript | GeneRegionTrack class and methods |
transcript-method | GeneRegionTrack class and methods |
transcript<- | GeneRegionTrack class and methods |
transcript<--method | GeneRegionTrack class and methods |
twoGroups | Data sets |
UcscTrack | Meta-constructor for GenomeGraph tracks fetched directly from the various UCSC data sources. |
values-method | AlignmentsTrack class and methods |
values-method | DataTrack class and methods |
values-method | GenomeAxisTrack class and methods |
values-method | RangeTrack class and methods |
values<--method | DataTrack class and methods |
width-method | GenomeAxisTrack class and methods |
width-method | IdeogramTrack class and methods |
width-method | RangeTrack class and methods |
width-method | SequenceTrack class and methods |
width<--method | IdeogramTrack class and methods |
width<--method | RangeTrack class and methods |
[ | RangeTrack class and methods |
[-method | AlignedReadTrack class and methods (NOTE: THIS IS STILL IN DEVELOPMENT AND SUBJECT TO CHANGE) |
[-method | AlignmentsTrack class and methods |
[-method | DataTrack class and methods |
[-method | GenomeAxisTrack class and methods |
[-method | IdeogramTrack class and methods |
[-method | RangeTrack class and methods |
[-method | StackedTrack class and methods |