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1. hiv-founder-id hiv-founder-id Public

   Estimate founders of HIV-1 infection using nucleotide sequences from very acute infection

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2. HMMoC-BFloat-Algebra HMMoC-BFloat-Algebra Public

   A tiny C++ library supplying the Algebra<> template, for polymorphic representation of non-negative floating-point values in either native (eg double), log-transformed, or BFloat representations. B…

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3. HIV-integration HIV-integration Public

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4. siever siever Public

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5. CQAPaper CQAPaper Public

   Reproducible research directory for paper on the Quadratic Ascent algorithms CQA and UQA, which are implemented in the galosh/profillic github repo.

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6. PREAST PREAST Public

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   scripts for HIV-1 founder inference and time of infection estimation

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