Open Source contributions

FOSS (developer & maintainer)

  • geobuffer: geographic information system (GIS) API; R package for constructing geodesic buffers using metric radii;
  • plotbiomes: data visualization API; R package for plotting Whittaker biomes with ggplot2;
  • bootstrapnet: data analysis & visualization API; R package for bootstrapping indices of ecological networks;
  • bootdissim: data analysis & visualization API; R package for building turnover saturation curves via bootstrapping
  • img-with-box-from-excel: Integrate Excel with Python for visualizing images with their corresponding bounding boxes for your AI project

Blog posts

Contributions to scientific publications

As author:

  • R programming for data processing, ETL & GIS operations, data analysis, visualization, bootstrapping models to simulate uncertainty, preparing & maintaining the GitHub repository for:

    • Bennett J. M., et al. "Land use and pollinator dependency drives global patterns of pollen limitation in the Anthropocene." Nature Communications 11.1 (2020): 1-6. link. Maintaining the GitHub repository here
  • Implemented data analysis, Generalized Linear Mixed Model (GLMM), Before-After-Control-Impact (BACI) design and data visualization for:

    • Pardini E. A., et al. "GLMM BACI environmental impact analysis shows coastal dune restoration reduces seed predation on an endangered plant." Restoration Ecology 26.6 (2018): 1190-1194. link. Maintaining the GitHub repository here.
    • Scotti A., et al. "Small hydropower—small ecological footprint? A multi-annual environmental impact analysis using aquatic macroinvertebrates as bioindicators. Part 1: Effects on community structure." Frontiers in Environmental Science (2022): 1022. link Maintaining the GitHub repository here.
  • Spatial data processing and visualization for:

    • Bennett J. M., et al. "A review of European studies on pollination networks and pollen limitation, and a case study designed to fill in a gap." AoB Plants 10.6 (2018): ply068. link. Maintaining the GitHub repository here.
  • Data visualization and analysis for:

    • Motivans Š. E., et al. "Effects of different types of low‐intensity management on plant‐pollinator interactions in Estonian grasslands." Ecology and evolution 11.23 (2021): 16909-16926. link
    • Rakosy D., et al. "Intensive grazing alters the diversity, composition and structure of plant-pollinator interaction networks in Central European grasslands." PloS one 17.3 (2022): e0263576. link
    • Thompson A., et al. "Oilseed Rape Shares Abundant and Generalized Pollinators with Its Co-Flowering Plant Species." Insects 12.12 (2021): 1096. link

Acknowledged:

  • Developed the text processing and data visualization scripts for:

    • Knight T. M., et al. "Reflections on, and visions for, the changing field of pollination ecology." Ecology Letters 21.8 (2018): 1282-1295. link. Maintaining the GitHub repository here.
  • Data processing and visualization for:

    • Bennett J. M., et al. "GloPL, a global data base on pollen limitation of plant reproduction." Scientific Data 5.1 (2018): 1-9. link. Maintaining the GitHub repository here.
  • Contributed to data analysis and figures for:

    • Crandall R. M., and Knight. T. M. "Role of multiple invasion mechanisms and their interaction in regulating the population dynamics of an exotic tree." Journal of Applied Ecology 55.2 (2018): 885-894. link.
  • Provided statistical and graphical assistance for:

    • Bernardo H. L., et al. "Count population viability analysis finds that interacting local and regional threats affect the viability of a rare plant." Ecological Indicators 93 (2018): 822-829. link
  • Prepared figures for:

    • Pardini E. A., et al. "Effects of seed density and proximity to refuge habitat on seed predation rates for a rare and a common Lupinus species." American Journal of Botany 104.3 (2017): 389-398. link.
  • Prepared figures for:

    • Thompson, A. H., and Knight. T. M.. "Exotic plant species receive adequate pollinator service despite variable integration into plant–pollinator networks." Oecologia 187.1 (2018): 135-142. link.
  • Prepared figure (map) for:

    • Bennett, J. M., et al. "GlobTherm, a global database on thermal tolerances for aquatic and terrestrial organisms." Scientific Data 5.1 (2018): 1-7. link
  • Prepared figures and biodiversity metrics for:

    • Vitt P., et al. "Temporal variation in the roles of exotic and native plant species in plant–pollinator networks." Ecosphere 11.2 (2020): e02981. link. Prepared fig. 3, 4, 5 & 6 in manuscript and figure S2, Appendix. Also calculated biodiversity metrics and their confidence intervals in Table S1, Appendix.