Resources
Software, datasets, teaching materials, and tools produced by our lab.
Software & R Packages
- chromePlus Markov models for chromosome + binary trait evolution, guide
- evobiR Analysis, simulation & teaching functions, vignette
- SAGA2 Model-averaged line cross analysis (AICc)
- DirectRepeateR Direct repeat annotation in genome assemblies
- micRocounter Fast 2–6mer repeat identification
- All GitHub repos →
Databases
- Epistasis Database 1,600+ datasets from 130+ papers on the role of epistasis in trait divergence
- Karyotype Databases 14,000+ cytogenetic records, beetles, flies, amphibians, mammals, Polyneoptera
- Circadian Period (τ) Database 1,634 free-running period measurements across the tree of life
- Tree of Sex Database 30,000+ records on sex determination across the tree of life
- Public Data Sources AVONET, PanTHERIA, GBIF, Open Tree of Life, Dryad & more
Visual Guides
- How Sex Chromosomes Evolve From autosomes to X, Y, Z, W, diagrams, interactive charts, and key papers
- Evolution of Genome Structure Fusions, fissions, polyploidy, meiotic drive, and karyotype stasis
- Epistasis & the Shifting Balance Line cross analysis, SAGA, and the Wright–Fisher debate
- Selection in Evolution Natural, sexual, background, and indirect selection, drift vs. selection
- Coleoptera Genomics Beetle genomes, Stevens elements, dosage compensation, and population genetics
- History of Chromosome Evolution Stebbins to ChromEvol, a century of ideas
- Publication Network Interactive co-authorship graph
Interactive Tools
- Population Genetics Simulator Wright-Fisher: drift, selection, mutation, migration, sex chromosomes
- Birth-Death Tree Simulator Same rates, different outcomes, stochasticity of macroevolution
- Phylogenetic Tree Explorer Load Newick, explore traits, multiple layouts
- CaveCrawler Interactive cave fish (Astyanax) bioinformatics
- Research Glossary PCM, chromosome evolution, and pop-gen terms defined
AI & Automation
- TraitTrawler AI-powered trait data collection from the literature
- AI Tools for Biologists Curated tools for data-driven biology
- AI Prompting Guide Paper review, qual exam simulation, and more
- All AI Projects →
Courses & Teaching
- Phylogenetic Comparative Methods Interactive guide: phylogenies → continuous → discrete → combined
- Phylogenetics 101 3-hour intro for upper undergrads / early grad students
- R for Biologists Tutorials for common ecology & evolution analyses; no prior R needed
- Experimental Design Statistically tractable experiment design using R
- BIOL 682: Communication in Bio Sci Scientific writing, storytelling, peer review & revision
- CURE Data Guide Undergrad research: chromosome number evolution
- Foundations of Evo Bio Seminar, foundational papers of the modern synthesis
- Fall 2025 Journal Club JEB 2024 reading list
For Graduate Students
- Grad School Orientation Mentoring, identity, and securing jobs
- Graduate Funding Opportunities Fellowships, grants, and funding sources
- Foundational Resources Data, writing, and career planning tools
- Raspberry Pi Cluster Build 26-node Pi 4B cluster notes
- TA Assignment App Tutorial · Google Form