To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("tximport")

In most cases, you don't need to download the package archive at all.

tximport

   

This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see tximport.

Import and summarize transcript-level estimates for gene-level analysis

Bioconductor version: 3.3

Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.

Author: Michael Love, Charlotte Soneson, Mark Robinson

Maintainer: Michael Love <michaelisaiahlove at gmail.com>

Citation (from within R, enter citation("tximport")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("tximport")

Documentation

HTML R Script tximport
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, GeneExpression, RNASeq, Software, Transcription
Version 1.0.3
In Bioconductor since BioC 3.3 (R-3.3) (< 6 months)
License GPL (>=2)
Depends
Imports utils
LinkingTo
Suggests knitr, testthat, tximportData, TxDb.Hsapiens.UCSC.hg19.knownGene, readr (>= 0.2.2), limma, edgeR, DESeq2(>= 1.11.6)
SystemRequirements
Enhances
URL
Depends On Me
Imports Me scater
Suggests Me DESeq2, variancePartition
Build Report  

Package Archives

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

Package Source tximport_1.0.3.tar.gz
Windows Binary tximport_1.0.3.zip
Mac OS X 10.9 (Mavericks) tximport_1.0.3.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/tximport/tree/release-3.3
Package Short Url http://bioconductor.org/packages/tximport/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: