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rates that change through time.
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- [[https://github.com/aezarebski/timtam2/wiki/Tutorial-3][Tutorial 3]] simulates an SIR type epidemic and then estimates the effective
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reproduction number through time based off of both genetic and case data.
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- [[https://github.com/aezarebski/timtam2/wiki/Tutorial-4][Tutorial 4]] is the same as Tutorial 3, but assumes that there was no sequenced sampling done during the first half of the epidemic.
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** Glossary
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