no code implementations • 16 May 2024 • Matthew Andres Moreno, Anika Ranjan, Emily Dolson, Luis Zaman
Computer simulations are an important tool for studying the mechanics of biological evolution.
no code implementations • 15 May 2024 • Emily Dolson, Santiago Rodriguez-Papa, Matthew Andres Moreno
Both components supply a public-facing API to attach phylogenetic tracking to digital evolution systems, as well as a stand-alone interface for measuring a variety of popular phylogenetic topology metrics.
no code implementations • 12 May 2024 • Matthew Andres Moreno, Santiago Rodriguez-Papa, Emily Dolson
Here, we set out to assess (1) if spatial structure, ecology, and selection pressure leave detectable signatures in phylogenetic structure, (2) the extent, in particular, to which ecology can be detected and discerned in the presence of spatial structure, and (3) the extent to which these phylogenetic signatures generalize across evolutionary systems.
no code implementations • 6 May 2024 • Matthew Andres Moreno, Connor Yang, Emily Dolson, Luis Zaman
Emerging ML/AI hardware accelerators, like the 850, 000 processor Cerebras Wafer-Scale Engine (WSE), hold great promise to scale up the capabilities of evolutionary computation.
no code implementations • 16 Apr 2024 • Matthew Andres Moreno, Connor Yang, Emily Dolson, Luis Zaman
Continuing improvements in computing hardware are poised to transform capabilities for in silico modeling of cross-scale phenomena underlying major open questions in evolutionary biology and artificial life, such as transitions in individuality, eco-evolutionary dynamics, and rare evolutionary events.
no code implementations • 11 Mar 2024 • Shakiba Shahbandegan, Emily Dolson
Ultimately, we find that lexicase and epsilon-lexicase selection each have a region of parameter space where they are incapable of optimizing contradictory objectives.
no code implementations • 2 Feb 2024 • Alexander Lalejini, Marcos Sanson, Jack Garbus, Matthew Andres Moreno, Emily Dolson
We introduce phylogeny-informed subsampling, a new class of subsampling methods that exploit runtime phylogenetic analyses for solving test-based problems.
no code implementations • 20 Sep 2023 • Emily Dolson, Alexander Lalejini
We then demonstrate that this approach can be successfully applied to a complex genetic programming problem.
no code implementations • 6 Jun 2023 • Alexander Lalejini, Matthew Andres Moreno, Jose Guadalupe Hernandez, Emily Dolson
Thus far, phylogenetic analyses have primarily been applied as post-hoc analyses used to deepen our understanding of existing evolutionary algorithms.
no code implementations • 17 Jan 2023 • Emily Dolson
Calculating the probability of an individual solution being selected under lexicase selection is an important problem in attempts to develop a deeper theoretical understanding of lexicase selection, a state-of-the art parent selection algorithm in evolutionary computation.
1 code implementation • 28 Aug 2021 • Jose Guadalupe Hernandez, Alexander Lalejini, Emily Dolson
While these metrics are informative, we hypothesize that other diversity metrics are more strongly predictive of success.
2 code implementations • 8 Dec 2019 • Shamreen Iram, Emily Dolson, Joshua Chiel, Julia Pelesko, Nikhil Krishnan, Özenç Güngör, Benjamin Kuznets-Speck, Sebastian Deffner, Efe Ilker, Jacob G. Scott, Michael Hinczewski
The pace and unpredictability of evolution are critically relevant in a variety of modern challenges: combating drug resistance in pathogens and cancer, understanding how species respond to environmental perturbations like climate change, and developing artificial selection approaches for agriculture.
Statistical Mechanics Populations and Evolution