TIN

DOI: 10.18129/B9.bioc.TIN    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see TIN.

Transcriptome instability analysis

Bioconductor version: 3.11

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>

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("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")

 

PDF	R Script	Introduction to the TIN package
PDF		Reference Manual
Text		NEWS

Details

biocViews	AlternativeSplicing, DifferentialSplicing, ExonArray, GeneExpression, Genetics, Microarray, Software
Version	1.20.0
In Bioconductor since	BioC 3.1 (R-3.2) (5.5 years)
License	Artistic-2.0
Depends	R (>= 2.12.0), data.table, impute, aroma.affymetrix
Imports	WGCNA, squash, stringr
LinkingTo
Suggests	knitr, aroma.light, affxparser, RUnit, BiocGenerics
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	TIN_1.20.0.tar.gz
Windows Binary	TIN_1.20.0.zip
macOS 10.13 (High Sierra)	TIN_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/TIN
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TIN
Package Short Url	https://bioconductor.org/packages/TIN/
Package Downloads Report	Download Stats