The R Genome Browser

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Documentation for package ‘Rgb’ version 1.7.5

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

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.density	Two-dimensional density 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 chromosome banding
hsGenes	Subset of Homo sapiens GRCh37 genes
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.exons.GENCODE	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