Publications are listed in reverse chronological order. Lab members are bold ed, and the tags after each entry link to the associated research project(s). Hover over a title (when available) for an informal summary of the paper. A complete and current list is also available on Google Scholar.
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| Icon | Meaning |
|---|---|
| Journal publication | |
| Conference publication | |
| Workshop publication | |
| Book chapter | |
| Preprint | |
| Extended Abstract or Poster | |
| Other publication | |
| Award |
2026
- Applications of Evolutionary Algorithms for Instrument Design (2026). Genetic Programming in Theory and Practice XXII.
- ECLIPSE: An Evolutionary Computation Library for Instrumentation Prototyping in Scientific Engineering (2026). arXiv (Cornell University). [pdf]
- Endosymbiotic mutualism can constrain host diversity and evolved complexity (2026). Artificial Life Conference. [pdf]
- PhyloFrame: A DataFrame-based Library for Fast, Flexible Phylogenetic Computation (2026). arXiv (Cornell University). [pdf]
- Robustness of Network Structural Metrics Under Incomplete Data (2026). International Conference on Complex Networks and Their Applications. [pdf]
- Saved by the Symbiont: Environmental Stress Intensity and Endosymbiont-Mediated Stress Response Determine Evolved Host Complexity (2026). Artificial Life Conference. [pdf]
- The impact of objective interactions on the performance of massive objective optimization algorithms (2026). arXiv (Cornell University). [pdf]
- Trust, but Verify: Rigorously Profiling Best-Effort High-Performance Computing for Digital Evolution (2026). arXiv (Cornell University). [pdf]
2025
- A Scalable Trie Building Algorithm for High-Throughput Phyloanalysis of Wafer-Scale Digital Evolution Experiments (2025). Artificial Life Conference. [pdf]
- Disentangling Swarm Behavior and Function: Improved Explainability via Information-Flow Diagrams and Controller Activation Patterns (2025). Artificial Life Conference.
- Downstream: efficient cross-platform algorithms for fixed-capacity stream downsampling (2025). arXiv (Cornell University). [pdf]
- Ecology, Spatial Structure, and Selection Pressure Induce Strong Signatures in Phylogenetic Structure (2025). Artificial Life. [pdf]
- Environmental connectivity influences long-term evolutionary outcomes (2025). Artificial Life Conference.
- Extending a Phylogeny-based Method for Detecting Signatures of Multi-level Selection for Applications in Artificial Life (2025). Artificial Life Conference. [pdf]
- Fitness seascapes are necessary for realistic modeling of the evolutionary response to drug therapy (2025). Science Advances.
- Functional Information Decomposition: A First-Principles Approach to Analyzing Functional Relationships (2025). arXiv (Cornell University). [pdf]
- Keep Your Friends Close and Your Enemies Distant: Partner Choice Can Enable Parasite Exclusion in Endosymbiotic Coevolution (2025). Artificial Life Conference.
- Leveraging Heterogeneous Controller Representations for Evolutionary Swarm Robotics (2025). IEEE Symposium on Computational Intelligence in Artificial Life and Cooperative Intelligent Systems (ALIFE-CIS).
- SPOOF: Simple Pixel Operations for Out-of-Distribution Fooling (2025). arXiv (Cornell University). [pdf]
- Testing the Inference Accuracy of Accelerator-Friendly Approximate Phylogeny Tracking (2025). IEEE Symposium on Computational Intelligence in Artificial Life and Cooperative Intelligent Systems (ALIFE-CIS). [pdf]
- Using spatial statistics to infer game-theoretic interactions in an agent-based model of cancer cells (2025). bioRxiv (Cold Spring Harbor Laboratory). [pdf]
2024
- Algorithms for Efficient, Compact Online Data Stream Curation (2024). arXiv (Cornell University). [pdf]
- Analysis of Phylogeny Tracking Algorithms for Serial and Multiprocess Applications (2024). arXiv (Cornell University). [pdf]
- Assessing the ability of the MODES toolbox to detect hallmarks of open-endedness (2024). Artificial Life Conference.
- Empirical: A scientific software library for research, education, and public engagement (2024). The Journal of Open Source Software.
- Environmental connectivity influences the origination of adaptive processes (2024). Conference on Artificial Life (ALIFE). [pdf]
- Evolving Weighted and Directed Graphs with Constrained Properties (2024). Genetic and Evolutionary Computation Conference Companion (GECCO Companion).
- On the de novo Evolution of Mutualism in Symbulation (2024). Artificial Life Conference.
- On the robustness of lexicase selection to contradictory objectives (2024). Genetic and Evolutionary Computation Conference (GECCO). [pdf]
- Phylogeny-Informed Fitness Estimation for Test-Based Parent Selection (2024). Genetic Programming in Theory and Practice XX. [pdf]
- Phylotrack: C++ and Python libraries for in silico phylogenetic tracking (2024). arXiv (Cornell University). [pdf]
- Reachability Analysis for Lexicase Selection via Community Assembly Graphs (2024). Genetic Programming in Theory and Practice XX. [pdf]
- Runtime phylogenetic analysis enables extreme subsampling for test-based problems (2024). Genetic and Evolutionary Computation Conference Companion (GECCO Companion). [pdf]
- Structured Downsampling for Fast, Memory-efficient Curation of Online Data Streams (2024). arXiv (Cornell University). [pdf]
- Trackable Agent-based Evolution Models at Wafer Scale (2024). Artificial Life Conference. [pdf]
2023
- Calculating lexicase selection probabilities is NP-Hard (2023). Genetic and Evolutionary Computation Conference (GECCO). [pdf]
- Interaction Strengths Affect Whether Ecological Networks Promote the Initiation of Egalitarian Major Transitions (2023). Artificial Life Conference.
- The ecology–evolution continuum and the origin of life (2023). Journal of The Royal Society Interface.
- The Role of Abiotic Parameters in the Promotion of Egalitarian Major Evolutionary Transitions (2023). Artificial Life Conference.
- Theoretical Limits on the Success of Lexicase Selection Under Contradictory Objectives (2023). GECCO 2023 Companion.
- Toward Phylogenetic Inference of Evolutionary Dynamics at Scale (2023). Artificial Life Conference.
- Using Evolutionary Computation to Find Parameters that Promote Egalitarian Major Evolutionary Transitions (2023). GECCO 2023 Companion.
2022
- Artificial selection methods from evolutionary computing show promise for directed evolution of microbes (2022). eLife. [pdf]
- Book Review: the evolution of complexity (2022). Genetic Programming and Evolvable Machines.
- Endosymbiosis or Bust: Influence of Ectosymbiosis on Evolution of Obligate Endosymbiosis (2022). Conference on Artificial Life (ALIFE). [pdf]
- Evolutionary stability of host-endosymbiont mutualism is reduced by multi-infection (2022). Artificial Life Conference.
- Hereditary stratigraphy: genome annotations to enable phylogenetic inference over distributed populations (2022). Artificial Life Conference.
- hstrat: a Python Package for phylogenetic inference on distributed digital evolution populations (2022). The Journal of Open Source Software. [pdf]
- Selection schemes from evolutionary computing show promise for directed evolution of microbes (2022). Genetic and Evolutionary Computation Conference Companion (GECCO Companion).
- Untangling phylogenetic diversity's role in evolutionary computation using a suite of diagnostic fitness landscapes (2022). Genetic and Evolutionary Computation Conference Companion (GECCO Companion).
- What Can Phylogenetic Metrics Tell us About Useful Diversity in Evolutionary Algorithms? (2022). Genetic Programming in Theory and Practice XVIII. [pdf]
2021
- Digital Evolution for Ecology Research: A Review (2021). Frontiers in Ecology and Evolution. [pdf]