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

DOI: 10.18129/B9.bioc.tximport    

This is the development version of tximport; for the stable release version, see tximport.

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

Bioconductor version: Development (3.7)

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 [cre,aut], Charlotte Soneson [aut], Mark Robinson [aut], Rob Patro [ctb], Andrew Parker Morgan [ctb], Ryan C. Thompson [ctb], Matt Shirley [ctb]

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 Importing transcript abundance datasets with tximport
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, GeneExpression, RNASeq, Software, Transcription
Version 1.7.4
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License GPL (>=2)
Depends
Imports utils
LinkingTo
Suggests knitr, rmarkdown, testthat, tximportData, TxDb.Hsapiens.UCSC.hg19.knownGene, readr (>= 0.2.2), limma, edgeR, DESeq2(>= 1.11.6), rhdf5, jsonlite
SystemRequirements
Enhances
URL
Depends On Me
Imports Me IsoformSwitchAnalyzeR, scater
Suggests Me DESeq2, variancePartition
Build Report  

Package Archives

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

Source Package tximport_1.7.4.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) tximport_1.7.4.tgz
Source Repository git clone https://git.bioconductor.org/packages/tximport
Package Short Url http://bioconductor.org/packages/tximport/
Package Downloads Report Download Stats

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