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Oxford HBV Decision Trees



RULES:
Rule 1: Genotype Assigned
Genotype assigned based on sequence > 800 bps, clustering with a pure genotype with bootstrap > 70% without recombination in the bootscan.

Rule 2: check the bootscan
Genotype unassigned based on sequence > 800bp, clustering with a pure genotype with bootstrap >70 %, with detection of recombination in the pure genotype bootscan.


Rule 3: check the report
Genotype unassigned based on sequence > 800bp, do not clustering with a pure genotype with bootstrap >70 %, with no detection of recombination in the pure genotype bootscan.

Rule 4: check the bootscan
Genotype unassigned based on sequence > 800bp, do not clustering with a pure genotype with bootstrap > 70 %, with detection of recombination in the pure genotype bootscan.


Rule 5: Pure
Genotype assigned based on sequence < 800bp, clustering with inside a HBV genotype with bootstrap > 70%.

Rule 5: check the report
Genotype assigned based on sequence < 800bp, clustering with outside a HBV genotype with bootstrap > 70%.

Rule 6: check the report
Genotype unassigned based on sequence < 800bp, do not clustering with a pure genotype with bootstrap >70 %.

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Developed by: Tulio de Oliveira, Sharon Cassol, Emmanouil Magiorkinis, Dimitrios Paraskevis and Andrew Rambaut

Developed in cooperation with the Evolutionary Biology Group at University of Oxford, UK, the HIV-1 Pathogenesis and Immunotherapeutics Program at University of Pretoria, South Africa and National Retrovirus Reference Center, Department of Hygiene and Epidemiology, Athens University Medical School, Greece.

Funded by the Marie Curie Fellowship, Wellcome Trust and Royal Society, UK.

Suggestions or problems on the program please contact:  Dr Tulio de Oliveira.