- Home
- Bioconductor 3.5
- Software Packages
- DRIMSeq
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DRIMSeq")
In most cases, you don't need to download the package archive at all.
DRIMSeq
|
|
|
|
|
Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seq
Bioconductor version: Release (3.5)
The package provides two frameworks. One for the differential transcript usage analysis between different conditions and one for the tuQTL analysis. Both are based on modeling the counts of genomic features (i.e., transcripts) with the Dirichlet-multinomial distribution. The package also makes available functions for visualization and exploration of the data and results.
Author: Malgorzata Nowicka [aut, cre]
Maintainer: Malgorzata Nowicka <gosia.nowicka at uzh.ch>
Citation (from within R,
enter citation("DRIMSeq")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DRIMSeq")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DRIMSeq")
| R Script | Differential transcript usage and transcript usage QTL analyses in RNA-seq with the DRIMSeq package | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | AlternativeSplicing, DifferentialExpression, DifferentialSplicing, GeneExpression, Genetics, MultipleComparison, RNASeq, SNP, Sequencing, Software, WorkflowStep |
| Version | 1.4.1 |
| In Bioconductor since | BioC 3.3 (R-3.3) (1.5 years) |
| License | GPL (>= 3) |
| Depends | R (>= 3.4.0) |
| Imports | utils, stats, MASS, GenomicRanges, IRanges, S4Vectors, BiocGenerics, methods, BiocParallel, limma, edgeR, ggplot2, reshape2 |
| LinkingTo | |
| Suggests | PasillaTranscriptExpr, GeuvadisTranscriptExpr, grid, BiocStyle, knitr, testthat |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | DRIMSeq_1.4.1.tar.gz |
| Windows Binary | DRIMSeq_1.4.1.zip |
| Mac OS X 10.11 (El Capitan) | DRIMSeq_1.4.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/DRIMSeq |
| Package Short Url | http://bioconductor.org/packages/DRIMSeq/ |
| 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
