ARBO is a Matlab/C++ package for simulation and analysis of arbovirus nonlinear dynamics.
The denguedasets package provide a curated collection of open-access dengue fever surveillance and climate datasets for epidemiological research and machine learning. Includes surveillance records, climatic co-variates, and mortality indicators from Bangladesh, the Philippines, Taiwan, Sri Lanka, Brazil, Colombia, Pakistan, India, Peru, Indonesia,
End to end Snakemake workflow for DENV-1 and DENV-2. FastQC, Trimmomatic, Picard, SPAdes, BWA, bcftools masked consensus at depth 10, MAFFT, IQ-TREE with GTR+G+I, BLAST driven context fetching, polyprotein translation and mutation tables. Includes full references and citation.
CDPH arbovirus to PDF scraper
Culex tarsalis is a North American mosquito species known for being the principle vector of the West Nile virus along with other arboviruses. The purpose of this project is to examine local adaptation and range expansion in Culex mosquitoes.
Open mosquito-risk dataset: 29,329 US towns (land cover, population) + state West Nile & EEE surveillance. CC-BY. https://mosquitozone.app
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