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trvrb committed Dec 19, 2017
1 parent 4ce5a67 commit a8cd1344c7186d08745d49d1256f12ea5ba11703
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  1. +4 −4 HIV/README.md
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There are four broad categories of analyses that we did on HIV sequences for this paper.
1. [Maximum likelihood analysis for HIV-Env, HIV-Protease, and HIV-RT.](roka/HIV/max_likelihood)
2. [Derive an informed prior on the rate of evolution for temporally-resolved trees](/roka/HIV/clock_prior_controls)
3. [Estimate a temporally-resolved phylogeny for HIV-Env](roka/HIV/bayesian_timetree)
4. [Estimate changes in effective viral population size in Roka over the outbreak](roka/HIV/bayesian_skyline)
1. [Maximum likelihood analysis for HIV-Env, HIV-Protease, and HIV-RT.](max_likelihood)
2. [Derive an informed prior on the rate of evolution for temporally-resolved trees](clock_prior_controls)
3. [Estimate a temporally-resolved phylogeny for HIV-Env](bayesian_timetree)
4. [Estimate changes in effective viral population size in Roka over the outbreak](bayesian_skyline)

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