Man pages for paul-shannon/igvR
igvR: integrative genomics viewer

BedpeInteractionsTrack-classConstructor for BedpeInteractionsTrack
currently.supported.stock.genomescurrently.supported.stock.genomes
DataFrameAnnotationTrack-classConstructor for DataFrameAnnotationTrack
DataFrameQuantitativeTrack-classConstructor for DataFrameQuantitativeTrack
displayTrackdisplay the specified track in igv
enableMotifLogoPopupsturn mottif log popups on or off
GenomicAlignmentTrack-classConstructor for GenomicAlignmentTrack
getGenomicRegionObtain the chromosome and coordiates of the currently...
getSupportedGenomesGet the shorthand codes (eg, "hg38") for the genomes...
getTrackNamesGet the names of all the tracks currently displayed in igv
GFF3Track-classConstructor for GFF3Track
GRangesAnnotationTrack-classConstructor for GRangesAnnotationTrack
GRangesQuantitativeTrack-classConstructor for GRangesQuantitativeTrack
GWASTrack-classConstructor for GWASTrack
GWASUrlTrack-classConstructor for GWASUrlTrack
igvAnnotationTrack-classConstructor for igvAnnotationTrack
igvR-classCreate an igvR object
parseAndValidateGenomeSpecparseAndValidateGenomeSpec
pingTest the connection between your R session and the webapp
QuantitativeTrack-classConstructor for QuantitativeTrack
RemoteAlignmentTrack-classConstructor for RemoteAlignmentTrack
removeTracksByNameRemove named tracks
saveToSVGGet entire igv browser image in svg
setCustomGenomeSpecify the reference genome you wish to use, via full...
setGenomeSpecify the reference genome, currently limited to hg38,...
setTrackClickFunctionSpecify (supply) the javascript function run on track click...
setTrackHeightRemove named tracks
showGenomicRegionSet the visible region, by explicit chromLoc string, or by...
showTrackLabelsHide or show igv track labels
Track-classConstructor for Track
trackInfoGet basic info about a track: its type, file format, source...
trackSizeRetrieve the size of the QuantitativeTrack
trackSize-BedpeInteractionsTrack-methodRetrieve the size of the BedpeInteractionsTrack
trackSize-DataFrameAnnotationTrack-methodRetrieve the size of the DataFrameAnnotationTrack
trackSize-DataFrameQuantitativeTrack-methodRetrieve the size of the DataFrameQuantitativeTrack
trackSize-GenomicAlignmentTrack-methodRetrieve the size of the GenomicAlignmentTrack
trackSize-GFF3Track-methodRetrieve the size of the GFF3Track
trackSize-GRangesAnnotationTrack-methodRetrieve the size of the GRangesAnnotationTrack
trackSize-GRangesQuantitativeTrack-methodRetrieve the size of the GRangesQuantitativeTrack
trackSize-GWASTrack-methodRetrieve the size of the GWASTrack
trackSize-GWASUrlTrack-methodRetrieve the size of the GWASUrlTrack
trackSize-UCSCBedAnnotationTrack-methodRetrieve the size of theUCSCBedAnnotationTrack
trackSize-UCSCBedGraphQuantitativeTrack-methodRetrieve the size of the UCSCBedGraphQuantitativeTrack
trackSize-VariantTrack-methodRetrieve the size of the VariantTrack
UCSCBedAnnotationTrack-classConstructor for UCSCBedAnnotationTrack
UCSCBedGraphQuantitativeTrack-classConstructor for UCSCBedGraphQuantitativeTrack
url.existsurl.exists
VariantTrack-classConstructor for VariantTrack
zoomInzoom the genome view in by a factor of 2
zoomOutzoom the genome view out by a factor of 2
paul-shannon/igvR documentation built on Nov. 11, 2023, 8:26 p.m.