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brokilon documentation

API Reference

  • brokilon package
    • brokilon.ccd package
      • brokilon.ccd.clades package
        • brokilon.ccd.clades.base module
        • brokilon.ccd.clades.deme module
        • brokilon.ccd.clades.sranges module
        • brokilon.ccd.clades.transmission_ancestry module
        • brokilon.ccd.clades.transmission_block module
      • brokilon.ccd.cli package
        • brokilon.ccd.cli.breath_helper module
        • brokilon.ccd.cli.ccd_map_cli module
        • brokilon.ccd.cli.common_options module
        • brokilon.ccd.cli.geography module
        • brokilon.ccd.cli.transcope module
      • brokilon.ccd.domain package
        • brokilon.ccd.domain.sranges package
          • brokilon.ccd.domain.sranges.sranges module
        • brokilon.ccd.domain.topology package
          • brokilon.ccd.domain.topology.ccd module
          • brokilon.ccd.domain.topology.ccd0_attempt module
        • brokilon.ccd.domain.transmission package
          • brokilon.ccd.domain.transmission.find_infectors module
          • brokilon.ccd.domain.transmission.io module
          • brokilon.ccd.domain.transmission.label_transmission_history module
          • brokilon.ccd.domain.transmission.transmission_ccd module
          • brokilon.ccd.domain.transmission.transmission_ccd0 module
        • brokilon.ccd.domain.phylogeography module
      • brokilon.ccd.types module
    • brokilon.core package
      • brokilon.core.read_nexus module
      • brokilon.core.taxon_map_utils module
      • brokilon.core.tree module
    • brokilon.majority_rule_consensus package
      • brokilon.majority_rule_consensus.cli module
      • brokilon.majority_rule_consensus.majority_consensus module
    • brokilon.metrics package
      • brokilon.metrics.generalized_kendall_colijn module
      • brokilon.metrics.generalized_robinson_foulds module
      • brokilon.metrics.robinson_foulds module
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brokilon.metrics package¶

Submodules¶

  • brokilon.metrics.generalized_kendall_colijn module
  • brokilon.metrics.generalized_robinson_foulds module
    • _get_deme_clades()
    • deme_robinson_foulds()
    • deme_robinson_foulds_reference()
  • brokilon.metrics.robinson_foulds module
    • robinson_foulds()
    • robinson_foulds_ccd()

Module contents¶

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brokilon.metrics.generalized_kendall_colijn module
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  • brokilon.metrics package
    • Submodules
    • Module contents