Software
Daily climate and human data, automatically updated and released in a format to support epidemiological forecasting.
TP Smith, M Stemkovski, A Koontz, WD Pearse
Internal reproducible data cleaning and analysis pipeline to support our funded COVID-19 work
TP Smith, WD Pearse
R Package for searching and downloading data stored in a Symbiota2 portal
Koontz A, Brandt B, Dyreson C, and Pearse WD
Journal of Open Source Software 5(56): 2917
R package to calculate phylogenetic diversity metrics, Phylogenetic Generalized Linear Mixed Models, and more.
Pearse WD, Cadotte MW, Cavender-Bares J, Ives AR, Tucker CM, Walker SC, Helmus MR
Bioinformatics 31(17): 2888-2890
Python (version 1) and Ruby (version 2) program that automates phylogeny construction. Awarded the Robert May Prize by the British Ecological Society.
Pearse WD, Purvis A
Methods in Ecology and Evolution 4(7): 692-698
R package to download the supplementary data from papers using only their DOI
Pearse WD, Chamberlain SA, with vital contributions from Daniel Nüst
Journal of Open Source Software 3(25): 721
R package that calculates phenology estimators
Pearse WD, Stemkovski M
https://github.com/willpearse/phest
R package that automates the download of over 4 million pieces of trait data
The Bio Nerd Herd (run by the Pearse Lab)
https://github.com/willpearse/MADtraits
R package that automates the download of over 16 million pieces of ecological community data
The Bio Nerd Herd (run by the Pearse Lab)
https://github.com/willpearse/MADcomm
C++ Multiple Chain Monte Carlo Markov Chain. Really more of a toy, but useful for classwork
Pearse WD
https://github.com/willpearse/astin