API for ggbio
Visualization tools for genomic data

Global functions
$,GGbio-method	Man page
$<-,GGbio-method	Man page
+,Bioplot,Any-method	Man page
+,GGbio,ANY-method	Man page
+,Ideogram,ANY-method	Man page
.aggregate	Source code
.append_unit	Source code
.buildFacetsFromArgs	Source code
.changeStrandColor	Source code
.combineNames	Source code
.getLimits	Source code
.ggpcp	Source code
.onAttach	Source code
.radius	Source code
.trackWidth	Source code
.transformTextToSpace	Source code
.validList	Source code
.zoom	Source code
Arith	Man page
Arith,Tracks,ANY-method	Man page
Cache	Source code
GGbio	Man page Source code
GGbio-class	Man page
Grob	Man page
Grob,GGbio-method	Man page
Grob,gg-method	Man page
Grob,gtable-method	Man page
Grob,lattice-method	Man page
Grob,trellis-method	Man page
Grob-class	Man page
Grob-method	Man page
GrobList	Man page Source code
GrobList-class	Man page
Ideogram	Man page Source code
Ideogram-class	Man page
Plot	Man page
Plot,GGbio-method	Man page
Plot,Ideogram-method	Man page
Plot,gg-method	Man page
Plot,trellis-method	Man page
Plot-class	Man page
PlotList	Source code
ScalePlot	Source code
ScalePlot2	Source code
Tracked	Man page Source code
Tracked-class	Man page
Tracks-class	Man page
[,PlotList,numeric,missing,ANY-method	Man page
[,Tracks,numeric,missing,ANY-method	Man page
align.plots	Man page
alignPlots	Man page Source code
argList	Source code
arrangeGrobByParsingLegend	Man page Source code
autoplot	Man page
autoplot,BSgenome-method	Man page
autoplot,BamFile-method	Man page
autoplot,BamFileList-method	Man page
autoplot,ExpressionSet-method	Man page
autoplot,GAlignments-method	Man page
autoplot,GRanges-method	Man page
autoplot,GRangesList-method	Man page
autoplot,IRanges-method	Man page
autoplot,OrganismDb-method	Man page
autoplot,RangedSummarizedExperiment-method	Man page
autoplot,Rle-method	Man page
autoplot,RleList-method	Man page
autoplot,Seqinfo-method	Man page
autoplot,TabixFile-method	Man page
autoplot,TxDbOREnsDb-method	Man page
autoplot,VCF-method	Man page
autoplot,VRanges-method	Man page
autoplot,Views-method	Man page
autoplot,character-method	Man page
autoplot,matrix-method	Man page
backup	Man page
backup,Tracks-method	Man page
bgColor	Man page
bgColor,GGbio-method	Man page
bgColor,Tracked-method	Man page
bgColor,gg-method	Man page
bgColor,gtable-method	Man page
bgColor<-	Man page
bgColor<-,GGbio,character-method	Man page
bgColor<-,Tracked,character-method	Man page
bgColor<-,gg,character-method	Man page
bgColor<-,gtable,character-method	Man page
breakGr	Source code
breakGrTo5polyDf	Source code
by2	Source code
c,PlotList-method	Man page
c,Tracks-method	Man page
cbind,Tracks-method	Man page
chrDefault	Source code
circle	Man page Source code
coerce,Tracks,grob-method	Man page
combineAes	Source code
combineAes2	Source code
copyAttr	Source code
do.ggcall	Source code
evalLan	Source code
filterArgs	Source code
findGrobs	Source code
fixed,GGbio-method	Man page
fixed,Tracked-method	Man page
fixed,gg-method	Man page
fixed<-,GGbio,logical-method	Man page
fixed<-,Tracked,logical-method	Man page
fixed<-,gg,logical-method	Man page
genPlots	Source code
geom_alignment	Man page
geom_alignment,BamFile-method	Man page
geom_alignment,GRanges-method	Man page
geom_alignment,GRangesList-method	Man page
geom_alignment,OrganismDb-method	Man page
geom_alignment,TxDbOREnsDb-method	Man page
geom_alignment,missing-method	Man page
geom_alignment,uneval-method	Man page
geom_arch	Man page
geom_arch,GRanges-method	Man page
geom_arch,data.frame-method	Man page
geom_arch,missing-method	Man page
geom_arch,uneval-method	Man page
geom_arch_flip	Source code
geom_arch_flip2	Source code
geom_arrow	Man page
geom_arrow,GRanges-method	Man page
geom_arrow,missing-method	Man page
geom_arrow,uneval-method	Man page
geom_arrowrect	Man page
geom_arrowrect,GRanges-method	Man page
geom_arrowrect,missing-method	Man page
geom_arrowrect,uneval-method	Man page
geom_bar	Man page
geom_bar,ANY-method	Man page
geom_bar,GRanges-method	Man page
geom_bar,chevron-method	Man page
geom_bar,missing-method	Man page
geom_chevron	Man page
geom_chevron,GRanges-method	Man page
geom_chevron,missing-method	Man page
geom_chevron,uneval-method	Man page
geom_rect	Man page
geom_rect,ANY-method	Man page
geom_rect,GRanges-method	Man page
geom_rect,missing-method	Man page
geom_rect,uneval-method	Man page
geom_segment	Man page
geom_segment,ANY-method	Man page
geom_segment,GRanges-method	Man page
geom_segment,missing-method	Man page
geom_segment,uneval-method	Man page
getArrowLen	Source code
getAxisHeight	Source code
getDrawFunFromGeomStat	Source code
getGeomFun	Source code
getGrFromXlim	Source code
getHeight	Source code
getLegendGrob	Source code
getLimitsFromLayer	Source code
getLimitsFromScales	Source code
getNR	Source code
getPanelIndex	Source code
getStatFun	Source code
get_digits	Source code
ggbio	Man page
ggbio-class	Man page
ggbioPlot-class	Man page
ggbio_ggplot	Source code
ggbio_ggplot_mold	Source code
ggplot.BSgenome	Man page
ggplot.ExpressionSet	Man page
ggplot.GAlignments	Man page
ggplot.RsamtoolsFile	Man page
ggplot.Seqinfo	Man page
ggplot.SummarizedExperiment	Man page Source code
ggplot.TxDbOREnsDb	Man page
ggplot.VCF	Man page
ggplot.Vector	Man page
ggplot.character	Man page
ggplot.matrix	Man page
ggplotGrob-class	Man page
ggplotPlot-class	Man page
ggsave	Man page
hasAxis	Man page
hasAxis,GGbio-method}\alias{hasAxis,GGbio-method	Man page
hasAxis,Tracked-method	Man page Man page
hasAxis,gg-method	Man page Man page
hasAxis<-	Man page
hasAxis<-,GGbio,logical-method	Man page
hasAxis<-,Tracked,logical-method	Man page
hasAxis<-,gg,logical-method	Man page
height	Man page
height,GGbio-method	Man page
height,Tracked-method	Man page
height,gg-method	Man page
height<-	Man page
height<-,GGbio,numericORunit-method	Man page
height<-,Tracked,numericORunit-method	Man page
height<-,gg,numericORunit-method	Man page
isStat	Source code
isSupportedPlots	Source code
labeled	Man page
labeled,GGbio-method	Man page
labeled,Ideogram-method	Man page
labeled,Tracked-method	Man page
labeled,gTree-method	Man page
labeled,gg-method	Man page
labeled,gtable-method	Man page
labeled,text-method	Man page
labeled<-	Man page
labeled<-,GGbio,logical-method	Man page
labeled<-,Ideogram,logical-method	Man page
labeled<-,Tracked,logical-method	Man page
labeled<-,gg,logical-method	Man page
labeled<-,gtable,logical-method	Man page
latticeGrob-class	Man page
latticePlot-class	Man page
layout_circle	Man page
layout_circle,GRanges-method	Man page
layout_circle,missing-method	Man page
layout_circle,uneval-method	Man page
layout_karyogram	Man page
layout_karyogram,GRanges-method	Man page
listOfGrobs	Source code
mapToGG	Source code
mutable	Man page
mutable,GGbio-method	Man page
mutable,Tracked-method	Man page
mutable,gg-method	Man page
mutable<-	Man page
mutable<-,GGbio,logical-method	Man page
mutable<-,Tracked,logical-method	Man page
mutable<-,gg,logical-method	Man page
needCache	Source code
need_color	Source code
nextView	Man page Source code
parseHeight	Source code
plotFragLength	Man page
plotFragLength,character,GRanges-method	Man page
plotGrandLinear	Man page Source code
plotIdeogram	Man page Source code
plotInter	Source code
plotInter2	Source code
plotKaryogram	Man page
plotList	Source code
plotRangesLinkedToData	Man page
plotRangesLinkedToData,GenomicRanges_OR_GRangesList-method	Man page
plotRangesLinkedToData,RangedSummarizedExperiment-method	Man page
plotSpliceSum	Man page
plotSpliceSum,character,EnsDb-method	Man page
plotSpliceSum,character,GRangesList-method	Man page
plotSpliceSum,character,TxDb-method	Man page
plotStackedOverview	Man page
prevView	Man page Source code
print	Man page
print,Tracks-method	Man page
print.Tracks	Source code
rbind,Tracks-method	Man page
reduceListOfPlots	Source code
removeXAxis	Source code
removeYAxis	Source code
replaceArg	Source code
rescale	Man page
rescale,gg-method	Man page
rescale,ggplot-method	Man page
rescale,numeric-method	Man page
reset	Man page
reset,Tracks-method	Man page
returnProto	Source code
scaleGrob	Source code
scale_by_xlim	Source code
scale_fill_fold_change	Man page Source code
scale_fill_giemsa	Man page Source code
scale_x_sequnit	Man page Source code
setStat	Source code
show	Man page
show,Tracks-method	Man page
spaceAroundPanel	Source code
stat_aggregate	Man page
stat_aggregate,GRanges-method	Man page
stat_aggregate,missing-method	Man page
stat_aggregate,uneval-method	Man page
stat_bin	Man page
stat_bin,ANY-method	Man page
stat_bin,Rle-method	Man page
stat_bin,RleList-method	Man page
stat_bin,missing-method	Man page
stat_bin,uneval-method	Man page
stat_coverage	Man page
stat_coverage,BamFile-method	Man page
stat_coverage,GRanges-method	Man page
stat_coverage,GRangesList-method	Man page
stat_coverage,missing-method	Man page
stat_coverage,uneval-method	Man page
stat_gene	Man page
stat_gene,TxDb-method	Man page
stat_identity	Man page
stat_identity,ANY-method	Man page
stat_identity,GRanges-method	Man page
stat_identity,Rle-method	Man page
stat_identity,RleList-method	Man page
stat_identity,missing-method	Man page
stat_identity,uneval-method	Man page
stat_mismatch	Man page
stat_mismatch,BamFile-method	Man page
stat_mismatch,GRanges-method	Man page
stat_mismatch,missing-method	Man page
stat_mismatch,uneval-method	Man page
stat_reduce	Man page
stat_reduce,GRanges-method	Man page
stat_reduce,IRanges-method	Man page
stat_reduce,TxDbOREnsDb-method	Man page
stat_reduce,missing-method	Man page
stat_reduce,uneval-method	Man page
stat_slice	Man page
stat_slice,Rle-method	Man page
stat_slice,RleList-method	Man page
stat_slice,missing-method	Man page
stat_slice,uneval-method	Man page
stat_stepping	Man page
stat_stepping,GRanges-method	Man page
stat_stepping,missing-method	Man page
stat_stepping,uneval-method	Man page
stat_table	Man page
stat_table,GRanges-method	Man page
stat_table,GRangesList-method	Man page
stat_table,missing-method	Man page
stat_table,uneval-method	Man page
sub_names	Source code
summary	Man page
summary,Tracks-method	Man page
textPlot	Source code
theme_alignment	Man page
theme_clear	Man page Source code
theme_genome	Man page Source code
theme_noexpand	Man page Source code
theme_null	Man page Source code
theme_onlyXaxis	Source code
theme_pack_panels	Man page Source code
theme_tracks_fancy	Source code
theme_tracks_sunset	Man page Source code
titleGrob	Source code
tracks	Man page Source code
trans_seq	Source code
trans_seq_format	Source code
trans_seq_rev	Source code
uniformAroundPanel	Source code
xlim	Man page
xlim,GRanges-method	Man page
xlim,IRanges-method	Man page
xlim,Tracks-method	Man page
xlim,numeric-method	Man page
xlim<-	Man page
xlim<-,Tracks,GRanges-method	Man page
xlim<-,Tracks,IRanges-method	Man page
xlim<-,Tracks,numeric-method	Man page
xlim_car	Source code
zoom	Man page Source code
zoomLevelToGeom	Source code
zoom_in	Man page Source code
zoom_out	Man page Source code