This repository contains scripts and data for the article "Crowdsourcing fungal biodiversity: revision of iNaturalist observations in Northern West Siberia" submitted to the journal "Nature Conservation Research".
We analyze data from the iNaturalist project "Fungi and myxomycetes in Northern West Siberia", which filters observations of fungi and myxomycetes from three regions of Western Siberia — Yamalo-Nenets AO, Khanty-Mansi AO and Tyumen Region.
For scripts reproducibility renv is used, so to restore the project library you need to execute renv::restore(). This will load the required R packages.
Some functions calls are cached using memoise to avoid repeating API queries. Caching parameters added at the beginning of the scripts where necessary.
The order in which the scripts are executed:
- Import of required raw data.
- Search scientific names of taxa used in the datasets against GBIF Backbone Taxonomy.
- Preparing the iNaturalist data for further analysis.
- Taxonomic coverage and the finds of species new to the study regions.
- Geospatial distribution analysis of observations by administrative regions and protected areas.
- Time series analysis.
- Analysis of the observers' activity.
- Analysis of the identifiers' activity.
- Selection of observations of the protected species included in the IUCN Red List, the Red Book of the Russian Federation, and Red Books of the study regions.