Data set, R code and RMarkdown document that accompanies the publication "Fast Range Expansion of Red Imported Fire Ants in Virginia and Prediction of Future Spread in the United States" by Malone M, Ivanov K, Taylor SV & Schürch R in Ecosphere.
The data set only contains our newly acquired data, and some derived data that can be used to save computing time. Shape files for US state boundaries can be downloaded from https://www.census.gov/geographies/mapping-files/time-series/geo/carto-boundary-file.html.
Publisher
University Libraries, Virginia TechCorresponding Author Name
Roger SchürchFiles/Folders in Dataset and Description
Malone_Data_Code.zip
04_data/ – Folder holding data
04_data/Solenopsis invicta Virginia 3 May 2021 DwC.xlsx – Data from Virginia Museum of Natural History
04_data/2020 January - Dec Fire Ant Reporting for Morgan.xlsx - data for gis.csv – 2020 data from VDACS, prepared for Morgan
04_data/RoadSurvey_2021.xlsx – 2021 roadside survey data collected by Morgan Malone
04_data/model_AUCs.Rdata – SDM model area under the curve calculations;
04_data/2016_2019_IFA_Surveys_VDACS.xlsx – 2016-2019 RIFA surveys from VDACS
04_data/Roadsurveydata.csv – 2020 roadside survey data collected by Morgan Malone
04_data/RoadwayRandomization.csv – randomization results for sampling
04_data/sinvicta_gbif_data.csv – data prepared from GBIF data download https://www.gbif.org/occurrence/download/0000072-230530130749713
04_data/bio_fut_50_df.Rdata – downloaded future predictions of bioclimatic variables for 2050ies for the US
04_data/bio_fut_70_df.Rdata – downloaded future predictions of bioclimatic variables for 2070ies for the US
04_data/bio_curr_va_df.Rdata – downloaded current “predictions” of bioclimatic variables for Virginia
04_data/2020 January - Dec Fire Ant Reporting for Morgan.xlsx – 2020 Data from VDACS
04_data/rifaoccurence.csv – Collated RIFA occurrence data from our own roadside surveys, VDACS, and museum data
04_data/bio_fut_50_va_df.Rdata – downloaded future predictions of bioclimatic variables for 2050ies for the Virginia
04_data/bio_fut_70_va_df.Rdata – downloaded future predictions of bioclimatic variables for 2070ies for the Virginia
04_data/pseudo_absence.Rdata – generated pseudo-absence data
05_code/ – Folder holding code
05_code/gbif_data.R – prepare the GBIF download using API; results in the 04_data/sinvicta_gbif_data.csv data file used in the analysis
05_code/000_main.R – the script that governs the preparation of the environment, the analysis, and the rendering of the final report (i.e., the manuscript)
05_code/SDM_diagnostics.R – run Area Under the Curve (AUC) model diagnostics
05_code/SDM.R – prepare climatic data, load the pre-prepared data sets, run main SDM, prepare results
05_code/Rmarkdown/ – Folder holding the R Markdown file to render the manuscript
05_code/Rmarkdown/Malone_RIFASpread_MS_template.docx – The template file that allows rendering of the manuscript in the style of the target journal
05_code/Rmarkdown/Malone_RIFASpread_MS.Rmd – The manuscript text with instructions to render the results.
