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REGA HPV Decision Tree





RULES:

Rule 1: HPV subtype and species.
Subtype assigned based on sequence located in the L1 clustering inside a HPV subtype and subgroup with bootstrap > 70%.

Rule 2: check the report.
Subtype unassigned based on sequence located in the L1 clustering outside a HPV subtype and subgroup with bootstrap > 70%.

Rule 3: check the report.
Subtype unassigned based on sequence located in the L1 do not clustering with HPV subtype with bootstrap > 70%.

Rule 4: genomic region not supported.
HPV genomic region not supported for subtyping analysis identified with BLAST score > 200.



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HPV Tutorials
HPV Decision Trees
HPV Subtyping Process
HPV Example Sequences
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Developed by: Annabel Rector, Marc Van Ranst, Andrew Rambaut, and Tulio de Oliveira.

Developed in collaboration between the Africa Centre for Health and Population Studies bioinformatics group, UKZN, South Africa and the the REGA Institute at the Katholieke Universiteit Leuven, Belgium.

Funded by the Marie Curie Fellowship, Flemish Fund for Scientific Research (Fonds voor Wetenschappelijk Onderzoek, FWO) grant G.0513.06 and by a postdoctoral fellowship of the Research Fund K.U.Leuven


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