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

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.

AuthorJianhong Ou, Yong-Xu Wang, Lihua Julie Zhu
Date of publicationNone
MaintainerJianhong Ou <jianhong.ou@umassmed.edu>
LicenseGPL (>= 2)
Version1.10.2

View on Bioconductor

Functions

addArrowMark Man page
addGuideLine Man page
coverageGR Man page
dandelion.plot Man page
geneModelFromTxdb Man page
getCurTrackViewport Man page
GRoperator Man page
importBam Man page
importData Man page
importScore Man page
lolliplot Man page
optimizeStyle Man page
parse2GRanges Man page
parseWIG Man page
plotGRanges Man page
pos Man page
pos-class Man page
setTrackViewerStyleParam Man page
setTrackViewerStyleParam,trackViewerStyle,character,ANY-method Man page
setTrackViewerStyleParam,trackViewerStyle,character-method Man page
trackList Man page
trackList-class Man page
trackStyle Man page
trackStyle-class Man page
trackViewer Man page
trackViewer-package Man page
trackViewerStyle Man page
trackViewerStyle-class Man page
viewTracks Man page
xscale Man page
xscale-class Man page
yaxisStyle Man page
yaxisStyle-class Man page

Files

trackViewer/DESCRIPTION
trackViewer/NAMESPACE
trackViewer/NEWS
trackViewer/R
trackViewer/R/GRoperator.R trackViewer/R/addArrowMark.R trackViewer/R/addGuideLine.R trackViewer/R/allclasses.R trackViewer/R/coverageGR.R trackViewer/R/dandelion.plot.R trackViewer/R/geneModelFromTxdb.R trackViewer/R/getHeight.R trackViewer/R/grid.dandelion.R trackViewer/R/grid.lollipop.R trackViewer/R/importBam.R trackViewer/R/importData.R trackViewer/R/importScore.R trackViewer/R/lollipop.plot.R trackViewer/R/optimizeStyle.R trackViewer/R/parse2GRanges.R trackViewer/R/parseWIG.R trackViewer/R/plotGRanges.R trackViewer/R/plotGeneModel.R trackViewer/R/plotLollipops.R trackViewer/R/plotTrack.R trackViewer/R/privateUtil.R trackViewer/R/viewTracks.R
trackViewer/build
trackViewer/build/vignette.rds
trackViewer/inst
trackViewer/inst/doc
trackViewer/inst/doc/trackViewer.R
trackViewer/inst/doc/trackViewer.Rmd
trackViewer/inst/doc/trackViewer.html
trackViewer/inst/extdata
trackViewer/inst/extdata/cpsf160.repA_+.wig
trackViewer/inst/extdata/cpsf160.repA_-.wig
trackViewer/inst/extdata/cpsf160.repB_+.wig
trackViewer/inst/extdata/cpsf160.repB_-.wig
trackViewer/inst/extdata/fox2.bed
trackViewer/inst/extdata/map-pin-red.xml
trackViewer/inst/extdata/methy.bed
trackViewer/inst/unitTests
trackViewer/inst/unitTests/test_coverage.R
trackViewer/man
trackViewer/man/GRoperator.Rd trackViewer/man/addArrowMark.Rd trackViewer/man/addGuideLine.Rd trackViewer/man/coverageGR.Rd trackViewer/man/dandelion.plot.Rd trackViewer/man/geneModelFromTxdb.Rd trackViewer/man/getCurTrackViewport.Rd trackViewer/man/importBam.Rd trackViewer/man/importData.Rd trackViewer/man/importScore.Rd trackViewer/man/lolliplot.Rd trackViewer/man/optimizeStyle.Rd trackViewer/man/parse2GRanges.Rd trackViewer/man/parseWIG.Rd trackViewer/man/plotGRanges.Rd trackViewer/man/pos.Rd
trackViewer/man/track.rd
trackViewer/man/trackList.Rd trackViewer/man/trackStyle.Rd trackViewer/man/trackViewer-package.Rd trackViewer/man/trackViewerStyle.Rd trackViewer/man/viewTracks.Rd trackViewer/man/xscale.Rd trackViewer/man/yaxisStyle.Rd
trackViewer/tests
trackViewer/tests/runTests.R
trackViewer/vignettes
trackViewer/vignettes/trackViewer.Rmd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.