DRIMSeq specifications

Information


Unique identifier OMICS_15225
Name DRIMSeq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.8.0
Stability Stable
Requirements
limma, methods, stats, grid, BiocGenerics, IRanges, GenomicRanges, utils, testthat, S4Vectors, BiocStyle, edgeR, ggplot2, BiocParallel, knitr, MASS, reshape2, R(>=3.4.0), PasillaTranscriptExpr, GeuvadisTranscriptExpr
Maintained Yes

Download


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Versioning


No version available

Documentation


Maintainer


  • person_outline Malgorzata Nowicka

Publication for DRIMSeq

DRIMSeq citation

library_books

DEIsoM: a hierarchical Bayesian model for identifying differentially expressed isoforms using biological replicates

2017
Bioinformatics
PMCID: 5870796
PMID: 28595376
DOI: 10.1093/bioinformatics/btx357

[…] group. Additionally, MISO is slow due to its use of MCMC sampling, which is computationally challenging to adapt to the rapid growth in the amount of RNA-seq data (). Dirichlet-Multinomial framework (DRIMSeq) () infers the isoform fractions for each replicate in a Dirichlet-Multinomial model with a fixed hyperparameter and evaluates DE between two conditions by likelihood ratio test. Cufflinks () […]

DRIMSeq institution(s)
Institute for Molecular Life Sciences, University of Zurich, Zurich, Switzerland; SIB Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland
DRIMSeq funding source(s)
This work was supported by the Swiss Institute of Bioinformatics (SIB) Fellowship, and the Swiss National Science Foundation (SNSF) Project Grant (143883).

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