WaveSeqR

WaveSeqR is a library to detect regions of enrichment in ChIP-Seq data. The WaveSeqR algorithm uses the continuous wavelet transform and can locate variable-width peaks consistently in low signal-to-noise ratio data sets with good sensitivity and precision.

Topic

ChIP-seq;Epigenetics;DNA packaging

Detail

  • Operation: Peak detection

  • Software interface: Library

  • Language: R

  • License: GNU General Public License v>=2

  • Cost: Free

  • Version name: 1.0.3

  • Credit: National Research Initiative Competitive Grant no. USDA-NRI/NIFA 2008-35204-04660 and USDA-NRI/NIFA 2010-65205-20588 from the United States Department of Agriculture National Institute of Food and Agriculture.

  • Input: -

  • Output: -

  • Contact: songj88@umd.edu

  • Collection: -

  • Maturity: Stable

Publications

  • WaveSeq: a novel data-driven method of detecting histone modification enrichments using wavelets.
  • Mitra, Apratim, and Jiuzhou Song. “WaveSeq: a novel data-driven method of detecting histone modification enrichments using wavelets.” PloS one vol. 7,9 (2012): e45486.
  • https://doi.org/10.1371/journal.pone.0045486
  • PMID: 23029045
  • PMC: PMC3461018

Download and documentation

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