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A simplified (and much faster) simulation pipeline specifically for COVID-19 contact + transmission + phylogeny + sequence simulation

GPL-2.0 license

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FAVITES-COVID-Lite

A simplified (and much faster) simulation pipeline specifically for COVID-19 contact + transmission + phylogeny + sequence simulation

Dependencies:

NiemaGraphGen to simulate contact networks
GEMF to simulate transmission networks
CoaTran to simulate phylogenies
Seq-Gen to simulate sequences

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A simplified (and much faster) simulation pipeline specifically for COVID-19 contact + transmission + phylogeny + sequence simulation

GPL-2.0 license

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FAVITES-COVID-Lite v0.0.1_no_seqgen_subsample Latest

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