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trackViewer (version 1.8.3)

A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot

Description

Visualize mapped reads along with annotation as track layers for NGS dataset such as ChIP-seq, RNA-seq, miRNA-seq, DNA-seq, SNPs and methylation data.

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Version

Version

1.8.3

License

GPL (>= 2)

Maintainer

Jianhong Ou

Last Published

February 15th, 2017

Functions in trackViewer (1.8.3)

GRoperator

GRanges operator
dandelion.plot

dandelion.plots
xscale-class

Class "xscale"
getCurTrackViewport

Get current track viewport
parseWIG

convert WIG format track to BED format track
importData

Reading data from a BED or WIG file to RleList
trackViewer-package

Minimal designed plotting tool for genomic data
parse2GRanges

parse text into GRanges
trackStyle-class

Class "trackStyle"
lolliplot

Lolliplots
yaxisStyle-class

Class "yaxisStyle"
viewTracks

plot the tracks
track-class

Class "track"
trackList-class

List of tracks
pos-class

Class "pos"
optimizeStyle

Optimize the style of plot
plotGRanges

plot GRanges data
geneModelFromTxdb

Prepare gene model from an object of TxDb
importScore

Reading data from a BED or WIG file
addGuideLine

Add guide lines to the tracks
coverageGR

calculate coverage
addArrowMark

Add arrow mark to the figure at a given position
importBam

Reading data from a BAM file
trackViewerStyle-class

Class "trackViewerStyle"