The R Genome Browser


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Documentation for package ‘Rgb’ version 1.6.1

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Annotation Annotation track constructors
browsePlot R Genome browser
crossable-class Class '"crossable"'
draw.bg Background for track plots
draw.boxes Boxes plot of a track
draw.hist Histogram plot of a track
draw.pileup Pileup plot of a BAM track
draw.points Scatter plot of a track
draw.seq Plot a sequence of nucleotides
draw.steps Stairway plot of a track
drawable-class Class '"drawable"'
drawable.list Drawable list constructor
drawable.list-class Class '"drawable.list"'
findDrawables Find drawable objects in memory
handle Tk interface utilities
hsBands Homo sapiens GRCh37 genomic features
hsFeatures Homo sapiens GRCh37 genomic features
hsGenes Homo sapiens GRCh37 genomic features
istrack Extract elements within a genomic window
read.gtf Parses a GTF2 file
readRDT Single refTable object storage
refTable refTable class constructor
refTable-class Class '"refTable"'
saveRDT Single refTable object storage
segMerge Merges consecutive segments
segOverlap Merges overlapping segments
singlePlot Whole genome plot of a drawable list
sizetrack Extract elements within a genomic window
sliceable-class Class '"sliceable"'
subtrack Extract elements within a genomic window
tk.browse R Genome browser
tk.convert RDT file conversion
tk.file Tk interface utilities
tk.files Tk interface utilities
tk.folder Tk interface utilities
tk.tracks Track management for Genome browser
track-constructors Track constructors
track.bam Track constructors
track.bam-class Class '"track.bam"'
track.bands Track constructors
track.bands-class Class '"track.bands"'
track.bands.UCSC Annotation track constructors
track.CNV Track constructors
track.CNV-class Class '"track.CNV"'
track.CNV.DGV Annotation track constructors
track.exons Track constructors
track.exons-class Class '"track.exons"'
track.exons.CCDS Annotation track constructors
track.fasta-class Class '"track.fasta"'
track.fasta-constructors Track constructors for FASTA files
track.fasta.collection Track constructors for FASTA files
track.fasta.multi Track constructors for FASTA files
track.genes Track constructors
track.genes-class Class '"track.genes"'
track.genes.NCBI Annotation track constructors
track.table Track constructors
track.table-class Class '"track.table"'
track.table.GTF Annotation track constructors
yline Compute Y line to avoid collision