tracktables: Build IGV tracks and HTML reports

Methods to create complex IGV genome browser sessions and dynamic IGV reports in HTML pages.

Author
Tom Carroll, Sanjay Khadayate, Anne Pajon, Ziwei Liang
Date of publication
None
Maintainer
Tom Carroll <tc.infomatics@gmail.com>
License
GPL (>= 3)
Version
1.8.0

View on Bioconductor

Man pages

igvParam
Parameters for displaying bigwigs, bams and intervals in IGV
Intervals
Example genomic intervals
makebedtable
Make HTML pages for interval files or GRanges.
MakeIGVSampleMetadata
Make sample metadata file for use with IGV.
MakeIGVSession
Make IGV session XML and sample information file
MakeIGVSessionXML
Make IGV session XML
maketracktable
Make HTML pages for IGV sessions (Tracktables Experiment...

Files in this package

tracktables/DESCRIPTION
tracktables/NAMESPACE
tracktables/R
tracktables/R/tracktablesFunctions.R
tracktables/build
tracktables/build/vignette.rds
tracktables/data
tracktables/data/Intervals.rda
tracktables/inst
tracktables/inst/NEWS.Rd
tracktables/inst/doc
tracktables/inst/doc/tracktables.R
tracktables/inst/doc/tracktables.Rnw
tracktables/inst/doc/tracktables.pdf
tracktables/inst/extdata
tracktables/inst/extdata/EBF_Example.bw
tracktables/inst/extdata/EBF_Peaks.bed
tracktables/inst/extdata/H3K4me3_Example.bw
tracktables/inst/extdata/H3K9ac_Example.bw
tracktables/inst/extdata/RNAPol2_Example.bw
tracktables/inst/js
tracktables/inst/js/dataTables.fixedColumns.min.js
tracktables/inst/js/dataTables.scroller.min.js
tracktables/inst/js/datatables.js
tracktables/inst/js/jquery.datatables.css
tracktables/inst/js/jquery.min.js
tracktables/inst/js/tracktables.css
tracktables/man
tracktables/man/Intervals.Rd
tracktables/man/MakeIGVSampleMetadata.Rd
tracktables/man/MakeIGVSession.Rd
tracktables/man/MakeIGVSessionXML.Rd
tracktables/man/igvParam.Rd
tracktables/man/makebedtable.Rd
tracktables/man/maketracktable.Rd
tracktables/vignettes
tracktables/vignettes/tracktables.Rnw