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DiffSplice

DiffSplice

DiffSplice is a tool for analysis of differential splicing in RNA-seq data. The DiffSplice uses a non-parametric permutation test to determine differences in transcription levels. The DiffSplice algorithm doesn't use annotations, and the results are viewable in the UCSC genome browser.

Topic

RNA-Seq; Gene transcripts; RNA splicing

Details

  • Operation: Differential gene expression analysis
  • Input: SAM
  • Output: -
  • Software interface: Command-line user interface
  • Language: C++
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: GNU General Public License v3
  • Cost: Free
  • Version name: 0.1.2beta;0.1.1
  • Credit: US National Institutes of Health (NIH).
  • Contact: Jinze Liu liuj _at_ cs.uky.edu
  • Collection: -

Publications

Hu Y, Huang Y, Du Y, Orellana CF, Singh D, Johnson AR, Monroy A, Kuan PF, Hammond SM, Makowski L, Randell SH, Chiang DY, Hayes DN, Jones C, Liu Y, Prins JF, Liu J "DiffSplice: the genome-wide detection of differential splicing events with RNA-seq." Nucleic Acids Res. 2013 Jan;41(2):e39. 15. https://doi.org/10.1093/nar/gks1026
PMID: 23155066
PMCID: PMC3553996


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