Projects

Open-source tools and research code, mostly in C++ and R, focused on ecological modeling, species distribution modeling, sensitivity analysis, and reproducible scientific workflows.

Featured

• maxentcpp

  C++

  A header-light C++ implementation of MaxEnt for species distribution modeling — fast on real ecological datasets and embeddable in larger pipelines.

  Source Documentation

• xsdm

  R

  R toolkit for explainable species distribution modeling — fitting, evaluating, and interpreting SDMs in a reproducible workflow.

  Source Documentation

• sobol

  C++

  Small, fast C++ library for Sobol' sensitivity analysis — useful for global sensitivity studies of ecological and other scientific simulations.

  Source Documentation

• nicher

  R

  R package for ecological niche analysis. Currently in private development; documentation and a public release are planned.

  Private repository

Earlier work

• Wildlife susceptibility to infectious diseases at global scales

  PNAS

  Code accompanying the manuscript on global-scale modeling of wildlife susceptibility to infectious diseases.

• mdd

  R

  An interface to download and manipulate spatial range maps for mammals using the Mammal Diversity Database taxonomy (MDD v1.2).

• geotax

  R

  Models the probability that two hosts share a pathogen given a phylogenetic or taxonomic distance, building on the framework in Robles et al., Frontiers in Applied Mathematics and Statistics (2017).

• Mammal–virus paper recommender

  Shiny

  An interactive Shiny app for browsing recommended literature on mammal parasites and viruses.

• fastJaccard

  R

  Parallel Jaccard similarity for binary matrices, built with Rcpp and RcppParallel.