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)