Code, Data, Repos, and More

Repositories from Projects or People in the Byrnes Lab
Our lab repo Find code for this page, other lab materials, and code and data from current and former students
Jarrett Our PI’s code and data through the ages
CIEE Intertidal-Subtidal at Shoals Marine Lab Working Group Code and data from the working group unifying subtidal and intertidal long-term data at the Shoals Marine Lab
Kelp Ecosystem Ecology Network Materials, methods, and data from KEEN projects over the years
Structural Equation Modeling for EEB Course materials for SEM for EEB workshops from Jarrett and collaborators
Kelp MUREP Code for our NASA funded project to look at remote sensing of shallow-water kelp forests in the Northwest Atlantic
COBALT Casco Bay Geospatial Workshop and Projects Course materials, shiny apps, and data processing code for an introduction to geospatial data and web applications in R using seagrass data in Casco Bay
Curtis Morris Lab grad student working on algal crusts and cobble berms
Breckie McCollum Lab grad student working on long-term subtidal rock wall analysis
Jillian Dunic Lab grad student working on global change in biodiversity
Isaac Rosenthal Lab grad student working on kelp forest remote sensing and citizen science
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Code
The Multifunc Package An R package for the analysis of multifunctionality in ecological studies
bibtex_2_website_qmds R tools to turn bibTeX entries into qmd files for quarto websites, like in the publications section of this site
Code for Suskiewicz et al. 2024 Examining the causal effects of temperature change on kelp abundance in the Gulf of Maine
Code and Data for Pérez-Matus et al. 2024 A meta-analysis of the effects of kelp on fish community structure
NOAA Coastwatch Tutorial in the Tidyverse A rewrite of the R code for the NOAA Coastwatch Satellite using tidyverse tools, terra, and sf
Habitat Suitability Modeling for COCA Modeling of Habitat Suitability for different species in Boston Harbor considering green versus grey infrastructure options in East Boston. For the 2018 COCA report led by Ellen Douglass
Code for Bowen et al. 2017 Structural Equation Models examining outcome of experiments looking at the effects of Phragmites genotype on ecosystem function
Code for Krumhansl et al. 2016 All code for modeling kelp forest change from the 2014 KelpTime database
pieDivPlots Want to make plots for biodiversity ecosystem function experiments where instead of points you have pie charts showing species composition? This is it!
Ecological SEMs in R A few SEMS from Ecological papers refit in lavaan
Code from Orzechowski et al. 2015 Meta-analysis of extinction selectivity in the geological record
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Data Sets
KelpTime Collection of global kelp time series harvested by NCEAS Kelp and Climate Change working group in 2014
KEEN ONE Kelp Forests of New England Data from the Kelp Ecosystem Ecology Network of New England, 2013-2017
Suskiewicz et al. 2024 data Data from: Ocean warming undermines the recovery resilience of New England kelp forests following a fishery-induced trophic cascade
Chase et al. 2019 data Data from: Species richness change across spatial scales
Pérez-Matus et al. 2025 data Data for a meta-analysis of the effect of kelp forests on fish communities around the world from observational and experimental studies spanning 1983-2020
SBC LTER: Reef: Feeding relationships for kelp forest species Literature-based southern California kelp forest food web trophic linkages from Byrnes et al. 2011 GCB
SBC LTER: Effect of algal diet on consumption, growth, and gonad weight of the purple sea urchin (Strongylocentrotus pupuratus) Data from REU/thesis project of Matt Foster on the effects of biodiversity on urchin growth from Foster et al. 2015
PIE LTER location and sample dates for sites used in space for time sea level rise study, Rowley, MA  
PIE LTER plant biomass associated with marsh sites used in space for time sea level rise study, Rowley, MA  
PIE LTER bird observations associated with marsh sites used in space for time sea level rise study, Rowley, MA  
PIE LTER predation and herbivory rates associated with marsh sites used in space for time sea level rise study, Rowley, MA  
PIE LTER quadrat percent cover associated with marsh sites used in space for time sea level rise study, Rowley, MA  
PIE LTER fish and crab trap data associated with marsh sites used in space for time sea level rise study, Rowley, MA  
PIE LTER herbivory measurement associated with marsh sites used in space for time sea level rise study, Rowley, MA  
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