FAVITES: simultaneous simulation of transmission networks, phylogenetic trees and sequences | Zendy

Niema Moshiri | Zendy; Ma RagonnetCronin | Zendy; Joel O. Wertheim | Zendy; Siavash Mirarab | Zendy

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FAVITES: simultaneous simulation of transmission networks, phylogenetic trees and sequences

Author(s) -

Niema Moshiri,

Ma RagonnetCronin,

Joel O. Wertheim,

Siavash Mirarab

Publication year - 2018

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bty921

Subject(s) - computer science , transmission (telecommunications) , generative model , benchmark (surveying) , phylogenetic tree , data mining , source code , machine learning , artificial intelligence , generative grammar , biology , telecommunications , biochemistry , geodesy , gene , geography , operating system

The ability to simulate epidemics as a function of model parameters allows insights that are unobtainable from real datasets. Further, reconstructing transmission networks for fast-evolving viruses like Human Immunodeficiency Virus (HIV) may have the potential to greatly enhance epidemic intervention, but transmission network reconstruction methods have been inadequately studied, largely because it is difficult to obtain 'truth' sets on which to test them and properly measure their performance.

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