Ian Holmes

12PUBLICATIONS
25CO-AUTHORS
Automated software engineeringEvolution of developmental systemsPhylogeny and comparative analysisGene expression (incl. microarray and other genome-wide approaches)Artificial life and complex adaptive systems
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Publications (12)

|Jun 22, 2026
Apollo 3: Multi-Species Genome Curation.

|Jun 04, 2026
Insertions, deletions, and exchangeable couplings: a Dirichlet process over TKF92 domains and sites.

|Feb 12, 2026
Nested birth-death processes are competitive with parameter-heavy neural networks as time-dependent models of protein evolution.

Annabel Large, Ian Holmes

|Dec 05, 2025
Setting up JBrowse 2 for Visualizing Genome Synteny.

Colin Diesh, Garrett Stevens, Scott Cain

|Mar 03, 2025
Selective State Space Models Outperform Transformers at Predicting RNA-Seq Read Coverage.

Ian Holmes, Johannes Linder, David Kelley

|Aug 22, 2024
Insertions and Deletions: Computational Methods, Evolutionary Dynamics, and Biological Applications.

Benjamin D Redelings, Ian Holmes, Gerton Lunter

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Frequent Collaborators

3 joint publications

Robert Buels

2 joint publications

Colin Diesh

2 joint publications

Garrett Stevens

2 joint publications

Caroline Bridge