DOI: 10.18129/B9.bioc.tximport    

This is the development version of tximport; to use it, please install the devel version of Bioconductor.

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

Bioconductor version: Development (3.10)

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], Avi Srivastava [ctb]

Maintainer: Michael Love <michaelisaiahlove at gmail.com>

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


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Importing transcript abundance datasets with tximport
PDF   Reference Manual
Text   NEWS


biocViews DataImport, GeneExpression, ImmunoOncology, Preprocessing, RNASeq, Software, Transcription, Transcriptomics
Version 1.13.3
In Bioconductor since BioC 3.3 (R-3.3) (3 years)
License GPL (>=2)
Imports utils, stats, methods
Suggests knitr, rmarkdown, testthat, tximportData, TxDb.Hsapiens.UCSC.hg19.knownGene, readr (>= 0.2.2), limma, edgeR, csaw, DESeq2(>= 1.11.6), rhdf5, jsonlite, matrixStats, Matrix
URL https://github.com/mikelove/tximport
Depends On Me
Imports Me alevinQC, BgeeCall, IsoformSwitchAnalyzeR, tximeta
Suggests Me BANDITS, DESeq2, HumanTranscriptomeCompendium, SummarizedBenchmark, variancePartition
Links To Me
Build Report  

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

Source Package tximport_1.13.3.tar.gz
Windows Binary tximport_1.13.3.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) tximport_1.13.3.tgz
Source Repository git clone https://git.bioconductor.org/packages/tximport
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/tximport
Package Short Url http://bioconductor.org/packages/tximport/
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