tweeDEseq statistics

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Citations per year

Citations chart

Popular tool citations

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Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

tweeDEseq specifications


Unique identifier OMICS_02406
Name tweeDEseq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.26.0
Stability Stable
limma, parallel, edgeR, MASS, xtable, R(>=2.12.0), cqn, tweeDEseqCountData
Maintained Yes



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  • person_outline mesnaola <>
  • person_outline Robert Castelo <>
  • person_outline Juan González <>

Publication for tweeDEseq

tweeDEseq in publications

PMCID: 5668987
PMID: 29096703
DOI: 10.1186/s13293-017-0156-4

[…] silent and escape genes. based on this 30% cutoff, the misclassification rate of known escape genes is 3% and the area under curve (auc) is 0.92 (additional file : figure s1)., we used the r package tweedeseq [] to compare gene expression between males and females. tweedeseq first normalizes the raw counts of rna-seq reads, and then fits the rna-seq count data to a family of flexible […]

PMCID: 4404591
PMID: 25887593
DOI: 10.1186/s13059-015-0627-z

[…] variation in gene expression variation., three different methods were used to identify and quantify genes that may be differentially expressed among human groups: two published methods (deseq [] and tweedeseq []), and a permutation of the hierarchical anova. the two published methods can only compare two groups at a time, while permutations of the hierarchical anova permit the analysis of two […]

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tweeDEseq institution(s)
Center for Research in Environmental Epidemiology (CREAL), Barcelona, Spain; Department of Mathematics, Universitat Autònoma de Barcelona (UAB), Barcelona, Spain; Center for Genomic Regulation (CRG), Barcelona, Spain; Department of Experimental and Health Sciences, Research Program on Biomedical Informatics (GRIB), Universitat Pompeu Fabra, Barcelona, Spain; Hospital del Mar Research Institute (IMIM), Barcelona, Spain; CIBER Epidemiology and Public Health (CIBERESP), Barcelona, Spain
tweeDEseq funding source(s)
Supported by grants from the ‘Ministerio de Ciencia e Innovación - MICINN’ (MTM2011-26515, MTM2010-09526-E, MTM2009-10893 and TIN2011-22826), from European Reseach Council, Breathe project, ERC-AdG, and GA num. 268479.

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