1 The tracktables package | 2 Creating IGV sessions and HTML reports using tracktables | 3 Note on the use of relative paths | 4 Session Information
Package: tracktables 1.47.0
Tom Carroll
tracktables: Build IGV tracks and HTML reports
Methods to create complex IGV genome browser sessions and dynamic IGV reports in HTML pages.
Authors:
tracktables_1.47.0.tar.gz
tracktables_1.47.0.zip(r-4.7)tracktables_1.47.0.zip(r-4.6)tracktables_1.47.0.zip(r-4.5)
tracktables_1.47.0.tgz(r-4.6-any)tracktables_1.47.0.tgz(r-4.5-any)
tracktables_1.47.0.tar.gz(r-4.7-any)tracktables_1.47.0.tar.gz(r-4.6-any)
tracktables_1.47.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
tracktables/json (API)
| # Install 'tracktables' in R: |
| install.packages('tracktables', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- Intervals - Example genomic intervals
On BioConductor:tracktables-1.47.0(bioc 3.24)tracktables-1.46.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:f26e8b5b67. Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 202 | ||
| linux-devel-x86_64 | WARNING | 252 | ||
| source / vignettes | OK | 270 | ||
| linux-release-x86_64 | WARNING | 229 | ||
| macos-release-arm64 | WARNING | 116 | ||
| macos-oldrel-arm64 | WARNING | 110 | ||
| windows-devel | WARNING | 207 | ||
| windows-release | WARNING | 141 | ||
| windows-oldrel | WARNING | 172 | ||
| wasm-release | OK | 165 |
Exports:igvParammakebedtableMakeIGVSampleMetadataMakeIGVSessionMakeIGVSessionXMLmaketracktable
Dependencies:BHBiocGenericsBiocParallelBiostringsbitopsclicodetoolscpp11crayonformatRfutile.loggerfutile.optionsgenericsGenomicRangesglueIRangeslambda.rlifecyclemagrittroreRColorBrewerRcppreportrRhtslibrlangRNiftiRsamtoolsS4VectorsSeqinfoshadessnowstringistringrtractor.basevctrsXMLXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Parameters for displaying bigwigs, bams and intervals in IGV | igvParam igvParam-class |
| Example genomic intervals | Intervals |
| Make HTML pages for interval files or GRanges. | makebedtable |
| Make sample metadata file for use with IGV. | MakeIGVSampleMetadata |
| Make IGV session XML and sample information file | MakeIGVSession |
| Make IGV session XML | MakeIGVSessionXML |
| Make HTML pages for IGV sessions (Tracktables Experiment Report) | maketracktable |
