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Biodiversity Data Journal 4: e10021
https://doi.org/10.3897/BDJ.4.e10021 (21 Sep 2016)
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  • ContentsContents
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  • Introduction
  • Materials and Methods
    • 1. Sequence data
    • 2. Barcoding region
    • 3. Alignment
    • 4. Phylogeny inference
    • 5. Evaluation criteria
  • Results
    • 1.1. Complete dataset, Neighbor joining analysis
    • 1.2. Complete dataset, Maximum likelihood analysis
    • 1.3. Complete dataset, summary
    • 2.1. "Filtered" dataset, Neighbor joining analysis
    • 2.2. "Filtered" dataset, Maximum likelihood analysis
    • 2.3. "Filtered" dataset, summary
    • 3.1. "Long" dataset, Neighbor joining analysis
    • 3.2. "Long" dataset, Maximum likelihood analysis
    • 3.3. "Long" dataset, summary
    • 4. "Worst case" scenario
    • 5. "Best case" scenario
  • Discussion
    • Alignments
    • Phylogeny inference algorithms
    • Problematic sequences
    • Short sequences
    • "Worst case" versus "Best case" scenarios
    • Paraphyletic clades
    • Polyphyletic clades
  • Conclusions
  • References
  • Supplementary files
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