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DEGseq | An R package for identifying differentially expressed genes from RNA-seq data

Identifies differentially expressed genes or isoforms for RNA-seq data from different samples. DEGseq encourages users to export gene expression values in a table format which could be directly processed by edgeR. It is based on the random sampling model which fits well the random sampling model. This tool can be applied to recognize differential expression of exons or pieces of transcripts.

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DEGseq forum

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DEGseq classification

DEGseq specifications

Unique identifier:
OMICS_01305
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU Lesser General Public License version 3.0
Version:
1.2.2
Requirements:
qvalue, ShortRead, samr, methods
Software type:
Package/Module
Restrictions to use:
None
Programming languages:
R
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

DEGseq distribution

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DEGseq support

Documentation

Maintainers

  • Xuegong Zhang <>
  • Likun Wang <>
  • Xiaowo Wang <>

Credits

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Publications

Institution(s)

MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST/Department of Automation, Tsinghua, University, Beijing, China

Funding source(s)

Supported by National Natural Science Foundation of China (grant numbers 30625012, 60721003, 60905013); the National Basic Research Program of China (2004CB518605); Open Research Fund of State Key Laboratory of Bioelectronics, Southeast University of China.

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.