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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("tracktables")
In most cases, you don't need to download the package archive at all.
tracktables
Build IGV tracks and HTML reports
Bioconductor version: 3.0
Methods to create complex IGV genome browser sessions and dynamic IGV reports in HTML pages.
Author: Tom Carroll, Sanjay Khadayate, Anne Pajon, Ziwei Liang
Maintainer: Tom Carroll <tc.infomatics at gmail.com>
Citation (from within R,
enter citation("tracktables")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("tracktables")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("tracktables")
| R Script | Creating IGV HTML reports with tracktables | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | ReportWriting, Sequencing, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) |
| License | GPL (>= 3) |
| Depends | R (>= 3.0.0) |
| Imports | IRanges, GenomicRanges, XVector, Rsamtools, XML, tractor.base, stringr, RColorBrewer, methods |
| LinkingTo | |
| Suggests | knitr, BiocStyle |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | tracktables_1.0.0.tar.gz |
| Windows Binary | tracktables_1.0.0.zip |
| Mac OS X 10.6 (Snow Leopard) | tracktables_1.0.0.tgz |
| Mac OS X 10.9 (Mavericks) | tracktables_1.0.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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