The R Genome Browser
Class "track.exons"
Class "track.fasta"
Track constructors for FASTA files
Annotation track constructors
Class "crossable"
Background for track plots
Boxes plot of a track
Two-dimensional density plot of a track
Histogram plot of a track
Pileup plot of a BAM track
Scatter plot of a track
Plot a sequence of nucleotides
Stairway plot of a track
Class "drawable"
Class "drawable.list"
Drawable list constructor
Find drawable objects in memory
Extract elements within a genomic window
Parses a GTF2 file
Class "refTable"
refTable class constructor
Single refTable object storage
Merges consecutive segments
Merges overlapping segments
Whole genome plot of a drawable list
Class "sliceable"
R Genome browser
RDT file conversion
Track management for Genome browser
Tk interface utilities
Track constructors
Class "track.bam"
Class "track.bands"
Class "track.CNV"
Class "track.genes"
Class "track.table"
Compute Y line to avoid collision
Classes and methods to efficiently handle (slice, annotate, draw ...) genomic features (such as genes or transcripts), and an interactive interface to browse them. Performances and main features are highlighted in Mareschal et al (2014) <doi:10.1093/bioinformatics/btu185>.