BadTrIP statistics

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BadTrIP specifications


Unique identifier OMICS_28941
Name BadTrIP
Alternative name BAyesian epiDemiological TRansmission Inference from Polymorphisms
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Nicolan de Maio <>

Publication for BAyesian epiDemiological TRansmission Inference from Polymorphisms

BadTrIP in publication

PMCID: 5927459
PMID: 29668677
DOI: 10.1371/journal.pcbi.1006117

[…] observed due to sequencing error, as well as the specification of a realistic model for within-host pathogen population dynamics. here we propose a new bayesian approach to transmission inference, badtrip (bayesian epidemiological transmission inference from polymorphisms), that explicitly models evolution of pathogen populations in an outbreak, transmission (including transmission […]

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BadTrIP institution(s)
Nuffield Department of Medicine, University of Oxford, Oxford, UK; Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ, USA; Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
BadTrIP funding source(s)
Supported by the Wellcome Trust and the Royal Society (grant 101237/Z/13/Z), the Bill and Melinda Gates Foundation (grant OPP1091919), a Public Health England/University of Oxford Clinical Lectureship and Oxford Martin School.

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