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AltHapAlignR
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AltHapAlignR

AltHapAlignR is a tool estimate transcript abundace on gene and haplotype levels on genomic regions.



AltHapAlignR

AltHapAlignR is a tool estimate transcript abundace on gene and haplotype levels on genomic regions.

Topic

RNA-seq; Sequence analysis; Transcription factors and regulatory sites

Details

  • Operation: Haplotype mapping; RNA-Seq analysis
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU General Public License v>=2
    • Cost: Free
  • Version name: 0.5
  • Credit: The European Research Council: the European Union's Seventh Framework Programme, the Medical Research Council, Arthritis Research UK, Wellcome Trust, NIHR Oxford Biomedical Research Centre.
  • Contact: Peter Humburg peter.humburg _at_ gmail.com | Julian C Knight julian _at_ well.ox.ac.uk | Wanseon Lee wl _at_ well.ox.ac.uk | wl _at_ well.ox.ac.uk
  • Collection: -

Publications

Lee W, Plant K, Humburg P, Knight JC "AltHapAlignR: improved accuracy of RNA-seq analyses through the use of alternative haplotypes." Bioinformatics. 2018 Jul 15;34(14):2401-2408. https://doi.org/10.1093/bioinformatics/bty125
PMID: 29514179
PMCID: PMC6041798


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