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trackViewer (version 1.6.0)
A bioconductor package with minimalist design for plotting elegant track layers
Description
visualize mapped reads along with annotation as track layers for NGS dataset such as ChIP-seq, RNA-seq, miRNA-seq, DNA-seq.
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Version
1.6.0
License
GPL (>= 2)
Maintainer
Jianhong Ou
Last Published
October 2nd, 2015
Functions in trackViewer (1.6.0)
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geneModelFromTxdb
Prepare gene model from an object of TxDb
importBam
Reading data from a BAM file
addGuideLine
Add guide lines to the tracks
importScore
Reading data from a BED or WIG file
coverageGR
calculate coverage
importData
Reading data from a BED or WIG file to RleList
getCurTrackViewport
Get current track viewport
GRoperator
GRanges operator
optimizeStyle
Optimize the style of plot
addArrowMark
Add arrow mark to the figure at a given position
pos-class
Class
"pos"
trackList-class
List of tracks
parseWIG
convert WIG format track to BED format track
parse2GRanges
parse text into GRanges
viewTracks
plot the tracks
plotGRanges
plot GRanges data
xscale-class
Class
"xscale"
trackStyle-class
Class
"trackStyle"
trackViewer-package
Minimal designed plotting tool for genomic data
trackViewerStyle-class
Class
"trackViewerStyle"
yaxisStyle-class
Class
"yaxisStyle"