On the public citation graph
A comprehensive analysis of R’s application in ecological research from 2008 to 2023
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Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/bimj.200810425openalex-snapshot
Simultaneous Inference in General Parametric Models
inferredcites →https://doi.org/10.1002/eap.1822openalex-snapshot
Open science, reproducibility, and transparency in ecology
inferredcites →https://doi.org/10.1002/ece3.5970openalex-snapshot
A checklist for choosing between R packages in ecology and evolution
inferredcites →https://doi.org/10.1002/ece3.6330openalex-snapshot
The role of replication studies in ecology
inferredcites →https://doi.org/10.1002/ece3.70030openalex-snapshot
Code sharing in ecology and evolution increases citation rates but remains uncommon
inferredcites →https://doi.org/10.1002/ecs2.2567openalex-snapshot
Evaluating the popularity of R in ecology
inferredcites →https://doi.org/10.1002/ecs2.2753openalex-snapshot
Enhancing collaboration between ecologists and computer scientists: lessons learned and recommendations forward
inferredcites →https://doi.org/10.1002/ecy.4475openalex-snapshot
Functional R code is rare in species distribution and abundance papers
inferredcites →https://doi.org/10.1007/978-0-387-21706-2openalex-snapshot
Modern Applied Statistics with S
inferredcites →https://doi.org/10.1007/s11430-020-9666-3openalex-snapshot
Big data and the future of urban ecology: From the concept to results
inferredcites →https://doi.org/10.1016/j.cageo.2003.08.007openalex-snapshot
The use of the language interface of R: two examples for modelling water flux and solute transport
inferredcites →https://doi.org/10.1016/j.rvsc.2023.105079openalex-snapshot
R programming environment in wildlife: Are Veterinary Sciences at the same level than other research areas?
inferredcites →https://doi.org/10.1016/j.tree.2008.10.008openalex-snapshot
Generalized linear mixed models: a practical guide for ecology and evolution
inferredcites →https://doi.org/10.1016/j.tree.2023.05.010openalex-snapshot
Uniting Experiments and Big Data to advance ecology and conservation
inferredcites →https://doi.org/10.1016/s0098-3004(02)00034-1openalex-snapshot
R: a data analysis and statistical programming environment–an emerging tool for the geosciences
inferredcites →https://doi.org/10.1038/s41597-023-02496-2openalex-snapshot
Incentivising open ecological data using blockchain technology
inferredcites →https://doi.org/10.1046/j.1365-2389.2001.00383.xopenalex-snapshot
Statistics to support soil research and their presentation
inferredcites →https://doi.org/10.1046/j.1461-0248.2002.00339.xopenalex-snapshot
Functional diversity (FD), species richness and community composition
inferredcites →https://doi.org/10.1071/fp21102openalex-snapshot
The use of R in photosynthesis research
inferredcites →https://doi.org/10.1080/01621459.2016.1180986openalex-snapshot
Smoothing Parameter and Model Selection for General Smooth Models
inferredcites →https://doi.org/10.1080/10618600.1996.10474713openalex-snapshot
R: A Language for Data Analysis and Graphics
inferredcites →https://doi.org/10.1093/bioinformatics/btn129openalex-snapshot
adegenet : a R package for the multivariate analysis of genetic markers
inferredcites →https://doi.org/10.1093/bioinformatics/btq166openalex-snapshot
Picante: R tools for integrating phylogenies and ecology
inferredcites →https://doi.org/10.1093/bioinformatics/btr521openalex-snapshot
adegenet 1.3-1 : new tools for the analysis of genome-wide SNP data
inferredcites →https://doi.org/10.1093/bioinformatics/bty633openalex-snapshot
ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R
inferredcites →https://doi.org/10.1093/icesjms/fsac059openalex-snapshot
Big data approaches to the spatial ecology and conservation of marine megafauna
inferredcites →https://doi.org/10.1093/jpe/rtac096openalex-snapshot
glmm.hp: an R package for computing individual effect of predictors in generalized linear mixed models
inferredcites →https://doi.org/10.1093/jpe/rtad047openalex-snapshot
The use of R in forestry research
inferredcites →https://doi.org/10.1111/1467-9868.00374openalex-snapshot
Thin Plate Regression Splines
inferredcites →https://doi.org/10.1111/2041-210x.14325openalex-snapshot
Harnessing large language models for coding, teaching and inclusion to empower research in ecology and evolution
inferredcites →https://doi.org/10.1111/2041-210x.14396openalex-snapshot
Should we still teach or learn coding? A postgraduate student perspective on the use of large language models for coding in ecology and evolution
inferredcites →https://doi.org/10.1111/ecog.04617openalex-snapshot
landscapemetrics : an open‐source R tool to calculate landscape metrics
inferredcites →https://doi.org/10.1111/gcb.15409openalex-snapshot
Beyond ecosystem modeling: A roadmap to community cyberinfrastructure for ecological data‐model integration
inferredcites →https://doi.org/10.1111/j.1467-985x.2010.00676_9.xopenalex-snapshot
ggplot2: Elegant Graphics for Data Analysis
inferredcites →https://doi.org/10.1111/j.1467-9868.2010.00749.xopenalex-snapshot
Fast Stable Restricted Maximum Likelihood and Marginal Likelihood Estimation of Semiparametric Generalized Linear Models
inferredcites →https://doi.org/10.1111/jeb.14230openalex-snapshot
Implementing code review in the scientific workflow: Insights from ecology and evolutionary biology
inferredcites →https://doi.org/10.1126/science.1197962openalex-snapshot
Challenges and Opportunities of Open Data in Ecology
inferredcites →https://doi.org/10.1126/science.abg1780openalex-snapshot
Big-data approaches lead to an increased understanding of the ecology of animal movement
inferredcites →https://doi.org/10.1198/016214504000000980openalex-snapshot
Stable and Efficient Multiple Smoothing Parameter Estimation for Generalized Additive Models
inferredcites →https://doi.org/10.18637/jss.v022.i07openalex-snapshot
The ecodist Package for Dissimilarity-based Analysis of Ecological Data
inferredcites →https://doi.org/10.18637/jss.v033.i02openalex-snapshot
MCMC Methods for Multi-Response Generalized Linear Mixed Models: The MCMCglmm R Package
inferredcites →https://doi.org/10.18637/jss.v033.i09openalex-snapshot
Solving Differential Equations in R : Package deSolve
inferredcites →https://doi.org/10.18637/jss.v036.i03openalex-snapshot
Conducting Meta-Analyses in R with the metafor Package
inferredcites →https://doi.org/10.18637/jss.v064.i04openalex-snapshot
fitdistrplus : An R Package for Fitting Distributions
inferredcites →https://doi.org/10.18637/jss.v067.i01openalex-snapshot
Fitting Linear Mixed-Effects Models Using lme4
inferredcites →https://doi.org/10.18637/jss.v069.i01openalex-snapshot
Least-Squares Means: The R Package lsmeans
inferredcites →https://doi.org/10.18637/jss.v080.i01openalex-snapshot
brms : An R Package for Bayesian Multilevel Models Using Stan
inferredcites →https://doi.org/10.18637/jss.v082.i13openalex-snapshot
lmerTest Package: Tests in Linear Mixed Effects Models
inferredcites →https://doi.org/10.18637/jss.v086.i01openalex-snapshot
Supervised Multiblock Analysis in R with the ade4 Package
inferredcites →https://doi.org/10.18637/jss.v100.i05openalex-snapshot
Bayesian Item Response Modeling in R with brms and Stan
inferredcites →https://doi.org/10.1890/02-3114openalex-snapshot
CONFRONTING MULTICOLLINEARITY IN ECOLOGICAL MULTIPLE REGRESSION
inferredcites →https://doi.org/10.32614/cran.package.coxmeopenalex-snapshot
coxme: Mixed Effects Cox Models
inferredcites →https://doi.org/10.32614/cran.package.dismoopenalex-snapshot
dismo: Species Distribution Modeling
inferredcites →https://doi.org/10.32614/cran.package.ecospatopenalex-snapshot
ecospat: Spatial Ecology Miscellaneous Methods
inferredcites →https://doi.org/10.32614/cran.package.emmeansopenalex-snapshot
emmeans: Estimated Marginal Means, aka Least-Squares Means
inferredcites →https://doi.org/10.32614/cran.package.muminopenalex-snapshot
MuMIn: Multi-Model Inference
inferredcites →https://doi.org/10.32614/cran.package.nlmeopenalex-snapshot
nlme: Linear and Nonlinear Mixed Effects Models
inferredcites →https://doi.org/10.32614/cran.package.ouwieopenalex-snapshot
OUwie: Analysis of Evolutionary Rates in an OU Framework
inferredcites →https://doi.org/10.32614/cran.package.rasteropenalex-snapshot
raster: Geographic Data Analysis and Modeling
inferredcites →https://doi.org/10.32614/rj-2017-066openalex-snapshot
glmmTMB Balances Speed and Flexibility Among Packages for Zero-inflated Generalized Linear Mixed Modeling
inferredcites →https://doi.org/10.32614/rj-2018-017openalex-snapshot
Advanced Bayesian Multilevel Modeling with the R Package brms
inferredcites →https://doi.org/10.32942/osf.io/4cuwpopenalex-snapshot
The role of replication studies in ecology
inferredcites →https://doi.org/10.32942/x2cg64openalex-snapshot
Implementing Code Review in the Scientific Workflow: Insights from Ecology and Evolutionary Biology
inferredcites →https://doi.org/10.3390/d15121202openalex-snapshot
The Use of R and R Packages in Biodiversity Conservation Research
inferredcites →https://doi.org/10.4135/9781529694376openalex-snapshot
Introduction to Statistics With R
inferredcites →https://doi.org/10.48550/arxiv.1905.09501openalex-snapshot
Bayesian Item Response Modeling in R with brms and Stan
inferredcites →https://doi.org/10.7717/peerj.16505openalex-snapshot
phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things)
inferredcites →https://doi.org/10.7717/peerj.281openalex-snapshot
Poppr : an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.3897/neobiota.109.193861zenodo-depositor-declared
A workflow for impact indicators of alien species: A demonstration with Acacia species
inferred← citeshttps://doi.org/10.1002/ece3.71545openalex-snapshot
The Integration and Growth of R in Soil Research: A 10‐Year Analysis
inferred← citeshttps://doi.org/10.1002/ece3.72825openalex-snapshot
Generalized Additive Modeling of Ecological Data With mgcv: New Adequacy Assessment Tools
inferred← citeshttps://doi.org/10.1002/ecog.08026openalex-snapshot
‘MultiTraits': an integrated R package for analysis and visualization of multidimensional plant traits
inferred← citeshttps://doi.org/10.1016/j.ecoinf.2026.103926openalex-snapshot
Speeding up image annotation and AI-model training for wildlife images
inferred← citeshttps://doi.org/10.1016/j.pld.2025.06.003openalex-snapshot
Evaluating the relative importance of phylogeny and predictors in phylogenetic generalized linear models using the phylolm.hp R package
inferred← citeshttps://doi.org/10.1016/j.pld.2026.07.009openalex-snapshot
Linda: An R package for line transect-based nearest neighbor distance analysis of species distributional patterns
inferred← citeshttps://doi.org/10.1093/icesjms/fsaf226openalex-snapshot
A general methodology for the estimation of gillnet size-selectivity and population length frequencies
inferred← citeshttps://doi.org/10.1111/nph.71467openalex-snapshot
Intraspecific trait variation mediates realized extinction and unpaid extinction debt in island ecosystems
inferred← citeshttps://doi.org/10.21105/joss.10962openalex-snapshot
Bristlecone: an F# library for the long-term ecological detective
inferred← citeshttps://doi.org/10.24072/pcjournal.687openalex-snapshot
The SORTEE guidelines for data and code quality control in ecology and evolutionary biology
inferred← citeshttps://doi.org/10.3389/fpls.2025.1656136openalex-snapshot
Genotype by environment interaction for growth traits of families of Acacia melanoxylon based on BLUP and GGE biplot
inferred← citeshttps://doi.org/10.3389/frai.2025.1674927openalex-snapshot
Accelerating earth science discovery via multi-agent LLM systems
inferred← citeshttps://doi.org/10.64898/2025.12.04.692382openalex-snapshot
Statistics used by ecologists: the rise of R statistical software, GLM(M)s and Networks
inferred← citeshttps://doi.org/10.64898/2026.02.26.708267openalex-snapshot
ecoTolerance: An R package for Assessing Road and Human Footprint Tolerance in Wildlife Species
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