TIN
This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see TIN.
Transcriptome instability analysis
Bioconductor version: 3.10
The TIN package implements a set of tools for transcriptome instability analysis based on exon expression profiles. Deviating exon usage is studied in the context of splicing factors to analyse to what degree transcriptome instability is correlated to splicing factor expression. In the transcriptome instability correlation analysis, the data is compared to both random permutations of alternative splicing scores and expression of random gene sets.
Author: Bjarne Johannessen, Anita Sveen and Rolf I. Skotheim
Maintainer: Bjarne Johannessen <bjajoh at rr-research.no>
citation("TIN")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TIN")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("TIN")| Introduction to the TIN package | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AlternativeSplicing, DifferentialSplicing, ExonArray, GeneExpression, Genetics, Microarray, Software |
| Version | 1.18.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9 years) |
| License | Artistic-2.0 |
| Depends | R (>= 2.12.0), data.table, impute, aroma.affymetrix |
| Imports | WGCNA, squash, stringr |
| System Requirements | |
| URL |
See More
| Suggests | knitr, aroma.light, affxparser, RUnit, BiocGenerics |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | TIN_1.18.0.tar.gz |
| Windows Binary | TIN_1.18.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | TIN_1.18.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TIN |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/TIN |
| Bioc Package Browser | https://code.bioconductor.org/browse/TIN/ |
| Package Short Url | https://bioconductor.org/packages/TIN/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.10 | Source Archive |