|
| 1 | +--- |
| 2 | +layout: efflux |
| 3 | +title: "Methods for Rich Phylogenetic Inference Over Distributed Sexual Populations" |
| 4 | +date: 2023-07-24 |
| 5 | +permalink: "/pubs/:title" |
| 6 | +category: chapter |
| 7 | +download: https://github.com/mmore500/hstrat-recomb-concept/releases/download/v1.1.1/hstrat-recomb-concept.pdf |
| 8 | +view_publisher: https://link.springer.com/book/9789819984121 |
| 9 | +authors: |
| 10 | + - Matthew Andres Moreno |
| 11 | +venue: Genetic Programming Theory and Practice XX |
| 12 | +projects: |
| 13 | + - hstrat |
| 14 | +abstract: | |
| 15 | + The structure of relatedness among members of an evolved population tells much of its evolutionary history. |
| 16 | + In application-oriented evolutionary computation (EC), such phylogenetic information can guide algorithm selection and tuning. |
| 17 | + Although traditional direct tracking approaches provide the perfect phylogenetic record, sexual recombination complicates management and analysis of this data. |
| 18 | + Taking inspiration from biological science, this work explores a reconstruction-based approach that uses end-state genetic information to estimate phylogenetic history after the fact. |
| 19 | + We apply recently-developed "hereditary stratigraphy" genome annotations to lineages with sexual recombination to design devices germane to species phylogenies and gene trees. |
| 20 | + As shown through a series of validation experiments, proposed instrumentation can discern genealogical history, population size changes, and selective sweeps. |
| 21 | + Fully decentralized by nature, these methods afford new observability at scale, in particular, for distributed EC systems. |
| 22 | + Such capabilities anticipate continued growth of computational resources available to EC. |
| 23 | + Accompanying open source software aims to expedite application of reconstruction-based phylogenetic analysis where pertinent. |
| 24 | +bibtex: |- |
| 25 | + @inproceedings{moreno2024methods, |
| 26 | + author = {Moreno, Matthew Andres}, |
| 27 | + editor = {Winkler, Stephan |
| 28 | + and Trujillo, Leonardo |
| 29 | + and Ofria, Charles |
| 30 | + and Hu, Ting}, |
| 31 | + title = {Methods for Rich Phylogenetic Inference Over Distributed Sexual Populations}, |
| 32 | + booktitle = {Genetic Programming Theory and Practice XX}, |
| 33 | + year = {in print}, |
| 34 | + publisher = {Springer International Publishing}, |
| 35 | + isbn = {978-981-99-8413-8} |
| 36 | + } |
| 37 | +citation: in print |
| 38 | +supporting_materials: | |
| 39 | + - [data](https://osf.io/xj5pn/) [via Open Science Framework ❋](https://osf.io) |
| 40 | + - [source code](https://github.com/mmore500/hstrat-recomb-concept/tree/master) [via GitHub <i class="icon-github-1"></i>](https://github.com/) |
| 41 | + - [hstrat library code](https://github.com/mmore500/hstrat/tree/v1.6.1) [via GitHub <i class="icon-github-1"></i>](https://github.com/) |
| 42 | + - [conference slides](https://docs.google.com/presentation/d/1ZgkqB70hWHAu_hTCbByTgmZO8KqWdP4e/edit?usp=sharing&ouid=104286302849794528312) [via Google Slides](https://workspace.google.com/products/slides/) |
| 43 | + - [presentation](https://youtu.be/-pRSWX0shT0) [via YouTube <i class="icon-video"></i>](https://youtube.com) |
| 44 | + - [LaTeX source](https://github.com/mmore500/hstrat-recomb-concept/tree/master) [via GitHub <i class="icon-github-1"></i>](https://github.com/) |
| 45 | +--- |
0 commit comments