Learning an evolvable genotype-phenotype mapping. - Matthew Andres Moreno; Wolfgang Banzhaf; Charles Ofria (GECCO, 2018)

Toward Open-Ended Fraternal Transitions in Individuality. - Matthew Andres Moreno; Charles Ofria (Artif. Life, 2019)

Tag-based Genetic Regulation for Genetic Programming. - Alexander Lalejini; Matthew Andres Moreno; Charles Ofria (CoRR, 2020)

Conduit: a C++ library for best-effort high performance computing. - Matthew Andres Moreno; Santiago Rodriguez Papa; Charles Ofria (GECCO Companion, 2021)

Exploring Evolved Multicellular Life Histories in a Open-Ended Digital Evolution System. - Matthew Andres Moreno; Charles Ofria (CoRR, 2021)

SignalGP-Lite: Event Driven Genetic Programming Library for Large-Scale Artificial Life Applications. - Matthew Andres Moreno; Santiago Rodriguez Papa; Alexander Lalejini; Charles Ofria (CoRR, 2021)

Tag-based regulation of modules in genetic programming improves context-dependent problem solving. - Alexander Lalejini; Matthew Andres Moreno; Charles Ofria (Genet. Program. Evolvable Mach., 2021)

Tag-based module regulation for genetic programming. - Alexander Lalejini; Matthew Andres Moreno; Charles Ofria (GECCO Companion, 2022)

Hereditary stratigraphy: genome annotations to enable phylogenetic inference over distributed populations. - Matthew Andres Moreno; Emily L. Dolson; Charles Ofria (GECCO Companion, 2022)

Best-Effort Communication Improves Performance and Scales Robustly on Conventional Hardware. - Matthew Andres Moreno; Charles Ofria (CoRR, 2022)

hstrat: a Python Package for phylogenetic inference on distributed digital evolution populations. - Matthew Andres Moreno; Emily L. Dolson; Charles Ofria (J. Open Source Softw., 2022)

Tag Affinity Criteria Influence Adaptive Evolution. - Matthew Andres Moreno; Alexander Lalejini; Charles Ofria (GECCO Companion, 2023)

Phylogeny-Informed Fitness Estimation for Test-Based Parent Selection. - Alexander Lalejini; Matthew Andres Moreno; Jose Guadalupe Hernandez; Emily L. Dolson (GPTP, 2023)

Methods for Rich Phylogenetic Inference Over Distributed Sexual Populations. - Matthew Andres Moreno (GPTP, 2023)

Phylogeny-informed fitness estimation. - Alexander Lalejini; Matthew Andres Moreno; Jose Guadalupe Hernandez; Emily L. Dolson (CoRR, 2023)

Matchmaker, matchmaker, make me a match: geometric, variational, and evolutionary implications of criteria for tag affinity. - Matthew Andres Moreno; Alexander Lalejini; Charles Ofria (Genet. Program. Evolvable Mach., 2023)

Runtime phylogenetic analysis enables extreme subsampling for test-based problems. - Alexander Lalejini; Marcos Sanson; Jack Garbus; Matthew Andres Moreno; Emily L. Dolson (GECCO Companion, 2024)

Trackable Island-model Genetic Algorithms at Wafer Scale. - Matthew Andres Moreno; Connor Yang; Emily L. Dolson; Luis Zaman (GECCO Companion, 2024)

Analysis of Phylogeny Tracking Algorithms for Serial and Multiprocess Applications. - Matthew Andres Moreno; Santiago Rodriguez Papa; Emily L. Dolson (CoRR, 2024)

Algorithms for Efficient, Compact Online Data Stream Curation. - Matthew Andres Moreno; Santiago Rodriguez Papa; Emily L. Dolson (CoRR, 2024)

Methods to Estimate Cryptic Sequence Complexity. - Matthew Andres Moreno (CoRR, 2024)

Trackable Agent-based Evolution Models at Wafer Scale. - Matthew Andres Moreno; Connor Yang; Emily L. Dolson; Luis Zaman (CoRR, 2024)

Case Study of Novelty, Complexity, and Adaptation in a Multicellular System. - Matthew Andres Moreno; Santiago Rodriguez Papa; Charles Ofria (CoRR, 2024)

Phylotrack: C++ and Python libraries for in silico phylogenetic tracking. - Emily L. Dolson; Santiago Rodriguez Papa; Matthew Andres Moreno (CoRR, 2024)

A Guide to Tracking Phylogenies in Parallel and Distributed Agent-based Evolution Models. - Matthew Andres Moreno; Anika Ranjan; Emily L. Dolson; Luis Zaman (CoRR, 2024)

Structured Downsampling for Fast, Memory-efficient Curation of Online Data Streams. - Matthew Andres Moreno; Luis Zaman; Emily L. Dolson (CoRR, 2024)

DendroPy 5: a mature Python library for phylogenetic computing. - Matthew Andres Moreno; Mark T. Holder; Jeet Sukumaran (J. Open Source Softw., 2024)

Empirical: A scientific software library for research, education, and public engagement. - Anya E. Vostinar; Alexander Lalejini; Charles Ofria; Emily L. Dolson; Matthew Andres Moreno (J. Open Source Softw., 2024)

Ecology, Spatial Structure, and Selection Pressure Induce Strong Signatures in Phylogenetic Structure. - Matthew Andres Moreno; Santiago Rodriguez Papa; Emily L. Dolson (Artif. Life, 2025)

Downstream: efficient cross-platform algorithms for fixed-capacity stream downsampling. - Connor Yang; Joey Wagner; Emily L. Dolson; Luis Zaman; Matthew Andres Moreno (CoRR, 2025)