Rates of different base frequencies from different mixture datasets.

<p>The figure explores the impact of the 4 different base frequency proportions (pi(A), pi(C), pi(G), pi(T), gray bar on top of each panel) in our choice of substitution model for IQTree (GTR+F+I+G4). Proportion is on the Y-axis, and the different mixture datasets are ordered from <i>pol...

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Bibliographic Details
Main Author:	August Guang (9975678) (author)
Other Authors:	Casey W Dunn (21263816) (author), Vlad Novitsky (3366560) (author), Mark Howison (3315450) (author), Rami Kantor (7863) (author)
Published:	2025
Subjects:	Genetics Molecular Biology Biotechnology Evolutionary Biology Cancer Statistics Infectious Diseases Virology Biological Sciences not elsewhere classified still broadly used mean cluster size compared tree similarity also decreased number shape alignment provides flexible approach called larger clusters identified partial pol sequences 1 near full improve phylogenetic inference long hiv sequences phylogenetic inference near full 1 sequences shape alignments pol regions new approach molecular clusters improve phylogenetic full dataset short sequences long sequences available sequences xlink "> transmission dynamics systematically masked subset dataset study subset straightforward method short hiv shaped alignments results suggest provide insights proportional increments missing characters immediately depending different lengths analysis goals
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Rates of different base frequencies from different mixture datasets.

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