RepeatExplorer

Discover repeats in your next generation sequencing data

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Documentation

ReapeatExplorer2 Manual and Protocols

Reproducibility of repeat identification

Presentations from the 10th RepeatExplorer workshop (May 2022):

  • Macas, J – RepeatExplorer – history and principles
  • Neumann, P – Diagnostic features of repetitive elements
  • Novak, P – Assembly annotation tools

Presentations from the 9th RepeatExplorer workshop (May/June 2021):

  • Novak, P. – RepeatExplorer pipeline and associated tools
  • Macas, J. – RepeatExplorer applications
  • Neumann, P. – REXdb database and DANTE
  • Macas, J. – Using RE output for repeat annotation and quantification

Video tutorials for practical training during the 9th RepeatExplorer workshop

  • Galaxy environment and RepeatExplorer server (P. Novak)
  • Protocol 1: Repeat analysis in a single species (J. Macas)
  • Protocol 2: Comparative repeat analysis in multiple species (J. Macas)
  • Structure of the RepeatExplorer output files (P. Novak)
  • Protocols 1 + 2: evaluation and interpretation of the results, downstream analysis, data visualization tools  (J. Macas)
  • Protocol 3: TAREAN analysis of satDNA and FISH probe design (P. Neumann)
  • Protocol 4: Identification of centromeric repeats using ChIP-seq analysis (P. Neumann)
  • DANTE and JBrowse (P. Novak)

 

 

  • Home
  • Tools
    • RepeatExplorer2
    • TAREAN
    • DANTE
  • REXdb
  • Documentation
  • Publications
  • Workshop
    • Programme
    • Registration
    • Venue
    • Archive
      • Workshop 2022 Programme
      • Workshop 2022 gallery
      • Workshop 2021 Programme
      • Workshop 2019 Programme
      • Workshop 2019 galery
      • Workshop 2019 data
      • Workshop 2018 Programme
      • Workshop 2018 galery
      • Workshop 2017 Programme
      • Workshop gallery 2017
      • Workshop 2016 programme
      • Workshop 2016 gallery
      • Workshop 2015 Programme
      • Workshop 2015 gallery
      • Workshop 2014 programme
      • Workshop 2014 gallery

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