- Home
- Bioconductor 3.4
- Software Packages
- tximport
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 3.4 of Bioconductor; for the stable, up-to-date release version, see tximport.
Import and summarize transcript-level estimates for gene-level analysis
Bioconductor version: 3.4
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 |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DataImport, GeneExpression, RNASeq, Software, Transcription |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (1 year) |
| 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_1.2.0.tar.gz |
| Windows Binary | tximport_1.2.0.zip |
| Mac OS X 10.9 (Mavericks) | tximport_1.2.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/tximport/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/tximport/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
