This ReadMe.txt file was generated on 2021-08-25 by Femke Batsleer GENERAL INFORMATION 1. Title of Dataset: Behavioral strategies and the spatial pattern formation of nesting 2. Author Information A. Principal Investigator Contact Information Name: Femke Batsleer Institution: Ghent University Address: K.L. Ledeganckstraat 35, B-9000 Gent, Belgium Email: femke.batsleer@ugent.be B. Associates or Co-investigators Contact Information Name: Dirk Maes Institution: Research Institute for Nature and Forest Address: Herman Teirlinckgebouw, Havenlaan 88 bus 73, B-1000 Brussel, Belgium Email: dirk.maes@inbo.be Name: Dries Bonte Institution: Ghent University Address: K.L. Ledeganckstraat 35, B-9000 Gent, Belgium Email: dries.bonte@ugent.be 3. Date of data collection: 28/06/2016-15/08/2016 for CMR-study; 16/08/2016 for drone flight; modelling 4. Geographic location of data collection: 51°04'38"N, 2°33'37"E De Panne, Belgium; modelling 5. Information about funding sources that supported the collection of the data: Research Foundation – Flanders (FWO) SHARING/ACCESS INFORMATION 1. Licenses/restrictions placed on the data: this data can be freely accessed, used and shared for any purpose if the Dryad depository and publication in The American Naturalist are cited. 2. Links to publications that cite or use the data: Batsleer, Maes & Bonte (2021) Behavioral strategies and the spatial pattern formation of nesting. The American Naturalist, in press 3. Links to other publicly accessible locations of the data: http://doi.org/10.5281/zenodo.5212680 4. Links/relationships to ancillary data sets: http://doi.org/10.5281/zenodo.5212680 5. Was data derived from another source? no 6. Recommended citation for this dataset: Batsleer, Femke; Maes, Dirk; Bonte, Dries (2021), Behavioral strategies and the spatial pattern formation of nesting, Dryad, Dataset, https://doi.org/10.5061/dryad.g79cnp5q8 DATA & FILE OVERVIEW 1. File List: ABC_Params_all_runs.txt ABC_Summary_stats_all_runs.txt ABC_Summary_stats_field.txt Field_Data_Days.txt Field_Data_Nests_coordinates.txt Field_Data_Records.txt MicrohabitatModel_FullData.csv RS_GIS_data/RS_GIS_CIR.tif RS_GIS_data/RS_GIS_DEM.tif RS_GIS_data/RS_GIS_insolation.tiff RS_GIS_data/RS_GIS_NDVI.tiff RS_GIS_data/RS_GIS_slope.tif 2. Relationship between files, if important: Files starting with ABC_* are data for the Approximate Bayesian Computation (ABC) analysis, which analyses which simulations are closest to the field data Files starting with Field_Data_* are data from the field study, which are used to calculate ABC_Summary_stats_field.txt and nest locations are used in the microhabitat model. MicrohabitatModel_FullData.csv is used to analyse the microhabitat model, which contains derived/summarized data from the RS_GIS_data folder from nest positions in Field_* datafiles. RS_GIS_data contains raw remote sensing tif-files for use in GIS (epsg:31370): > with the 'CIR' having NIR-band in band 1 and Red-band in band 3, used to calculate 'NDVI' > with the 'DEM' the digital elevation model used to calculate (solar) 'insolation' and 'slope' 3. Additional related data collected that was not included in the current data package: Code to analyse and generate the derived data can be found at https://doi.org/10.5281/zenodo.5212680 METHODOLOGICAL INFORMATION 1. Description of methods used for collection/generation of data: There are three major blocks of data: 1) Simulations from an Individual-Based Model (IBM) used in an ABC-analysis (Approximate Bayesian Computation). Containing 3 files with ABC_*: > parameters of the simulations (ABC_Params_all_runs.txt; details in ODD-protocol in main publication). > summary statistics of the emerging pattern of the simulations (ABC_Summary_stats_all_runs.txt; Ripley's K (RK) and network metrics (NA): details on metrics can be found in the main publication and supplementary material). > summary statistics of the field study (ABC_Summary_stats_field.txt; similar as previous, but with 1 record, of the field study, to compare with simulations in the ABC-analysis) Code of IBM and ABC-analysis can be found at https://doi.org/10.5281/zenodo.5212680; ODD-protocol of IBM can be found in supplementary material of main publication 2) Field data from a capture-mark-recapture study with marked digger wasps (Bembix rostrata) and its nests. These are used to calculate ABC_Summary_stats_field.txt and for MicrohabitatModel_FullData.csv > (Meta)data regarding the days/dates field work was performed (Field_Data_Days.txt) > Coordinates of all the nests recorded (Field_Data_Nests_coordinates.txt; in epsg:31370 Lambert72) > Records of the capture-mark-recapture (CMR) study (Field_Data_Records.txt) Details can be found in main publication; code to process and summarize the data can be found at https://doi.org/10.5281/zenodo.5212680 3) Remote sensing data at the nest locations, derived from data from a drone flight on 16-8-2016. Details can be found in the main publication. > Summarized data of remote sensing data at the nest locations (taking into account several buffer scales) (MicrohabitatModel_FullData.csv) > data-files in folder 'RS_GIS_data' are the raw remote sensing data (CIR and DEM) and the derived remote sensing data (Insolation, Slope, NDVI); coordinate system in epsg:31370 Details can be found in main publication; code to analyze the data can be found at https://doi.org/10.5281/zenodo.5212680 2. Methods for processing the data: These can be found, together with code at https://doi.org/10.5281/zenodo.5212680. More details can be found in main publication and its supplementary materials. 3. Instrument- or software-specific information needed to interpret the data: Version of software: R-3.5.1 Python-3.8.6 Version of packages in R: spatial 7.3-11; spatstat 1.57-1; igraph 1.2.2; reshape2 1.4.3; readr 1.3.1 abc 2.1; dplyr 1.0.2; tidyr 1.1.2; ggplot2 3.3.2; 1.0.0; gridExtra 2.3; scales 1.0.0 INLA 18.07.12; lattice 0.20-35; rgdal 1.3-4; sp 1.3-1; fields 9.6, gstat 1.1-6; ggmap 2.6.1; reshape 0.8.7; raster 2.6-7; dismo 1.1-4; maps 3.3.0; maptools 0.9-4; mapdata 2.3.0; rgeos 0.3-28; GGally 1.4.0; MASS 7.3-50; ROCR 1.0-7; readxl 1.3.1; caret 6.0-80; imager 0.41.1 4. People involved with sample collection, processing, analysis and/or submission: Femke Batsleer, Dirk Maes, Dries Bonte DATA-SPECIFIC INFORMATION FOR: ABC_Params_all_runs.txt Description: Parameters of all simulations of the IBM; details of these parameters can be found in the ODD-protocol (supplementary material of main publication) 1. Number of variables: 10 2. Number of cases/rows: 1.000.000 3. Variable list and defintion: NOTE: for full description of the variables and the context in which they are used in the modelling, see ODD-protocol in supplementary material and code at https://doi.org/10.5281/zenodo.5212680 > pf: file name with unique identifier > scenario: submodel > node_ENV: strength of the environmental cue in the simulations > node_LSF: strength of local site fidelity in the simulations > node_CA: strength of the conspecici attraction in the simulations > beh_excl: variable to determine if behavioral mechanisms are behaviorally exclusive or if they can simultaneously act during nest choice > sigma_lsf: variable that defines the width of the normal distribution as response function of the local site fidelity > range_ca: variable that defines the radius of the circle in which the number of other nests are counted for conspecific attraction > param_mindens_ca: defines the intercept of the sigmoid function, the response function, of conspecific attraction > param_sigma_ca: defines the scale of the sigmoid function, the response function, of conspecific attraction 4. Missing data codes: not applicable 5. Specialized formats or other abbreviations used: ENV=environment, LSF=local site fidelity, CA=conspecific attraction DATA-SPECIFIC INFORMATION FOR: ABC_Summary_stats_all_runs.txt Description: summary statistics of the emerging nest spatial and network patterns of all simulations (ripley's K and network metrics); more details in the main publication 1. Number of variables: 16 2. Number of cases/rows: 1.000.000 3. Variable list and defintion: > scenario: submodel > file title: file name with unique identifier > RK2; RK5; RK10; RK15; RK20; RK30; RK40: Ripley's K values (measure for clustering of point pattern) with number indicating the scale (in m). > NA_internal_loops; NA_all_loops; NA_dens_undirected; NA_dens_directed; NA_reciproc; NA_transitivity_und; NA_transitivity_dir: network analysis metrics calculated for the network of the point pattern (see main publication of definition) 4. Missing data codes: NA 5. Specialized formats or other abbreviations used: RK=Ripley's K (with scale); NA=Network Analysis (network metric); und/dir=undirected/directed (network; directed is used in the main publication) DATA-SPECIFIC INFORMATION FOR: ABC_Summary_stats_field.txt Description: summary statistics of the nest spatial and network pattern of the field study (similar to previous) 1. Number of variables: 18 2. Number of cases/rows: 2 3. Variable list and defintion: > scenario: identifier > mean_dens; sd_dens: mean and standard deviation of point density of the spatial point pattern > 0; 2; 5; 10; 15; 20; 30; 40: Ripley's K values (measure for clustering of point pattern) with number indicating the scale (in m). > internal_loops; all_loops; dens_undirected; dens_directed; reciprocity; transitivity_und; transitivity_dir: network analysis metrics calculated for the network of the point pattern (see main publication of definition) 4. Missing data codes: NA 5. Specialized formats or other abbreviations used: parallel with ABC_Summary_stats_all_runs.txt, except for column mean_dens and sd_dens; line 2 is a helper line with distances of RK DATA-SPECIFIC INFORMATION FOR: Field_Data_Days.txt Description: (Meta)data regarding the days/dates field work was performed 1. Number of variables: 12 2. Number of cases/rows: 30 3. Variable list and defintion: > Timeframe: 3 arbitrary periods (for data exploration) > DayCount: Day number according to date > Dagnummer: sequential day number > Datum: date > Beginuur: start time of capturing > Einduur: end time of capturing > Totaal aantal uren: number of total hours capturing (einduur-beginuur) > Aantal vangers: number of catchers/persons > Aantal records: number of records > Aantal nieuw getagde: number of newly tagged individuals that day > Aantal nieuwe nesten: number of newly marked nests that day > Opmerkingen: remarks 4. Missing data codes: / 5. Specialized formats or other abbreviations used: in Dutch DATA-SPECIFIC INFORMATION FOR: Field_Data_Nests_coordinates.txt Description: Coordinates (Lambert72 epsg:31370) of all the nests recorded during the CMR fieldy study 1. Number of variables: 3 2. Number of cases/rows: 1017 3. Variable list and defintion: > NestID: unique identifier for nest/nest number > x: x-coordinate of nest (coordinate reference system epsg:31370 - Lambert72) > y: y-coordinate of nest (coordinate reference system epsg:31370 - Lambert72) 4. Missing data codes: / 5. Specialized formats or other abbreviations used: coordinates in Lambert 72 (epsg:31370) DATA-SPECIFIC INFORMATION FOR: Field_Data_Records.txt Description: Records of the capture-mark-recapture (CMR) study with records per wasp per nest. 1. Number of variables: 10 2. Number of cases/rows: 1810 3. Variable list and defintion: > RecordID: unique identifier of record > Datum: Date > WespID: wasp ID number (color abbreviation + number) > NestID: number of nest associated with the wasp > Prooi: Prey present/absent (1/0) > Prooisoort: species prey, if known > Parasiet: parasite present/absent (1/0) > Terug: returned to nest same day or not (indication of actual nest) > Toe: if nest was closed by the wasp (indication of actual nest) > Opmerkingen: remarks (in Dutch) 4. Missing data codes: / 5. Specialized formats or other abbreviations used: in Dutch DATA-SPECIFIC INFORMATION FOR: MicrohabitatModel_FullData.csv Description: Summarized data of remote sensing data at the nest locations (taking into account several buffer scales) for the micorhabitat model, to explain where nests can be present/absent according to environmental variables 1. Number of variables: 80 2. Number of cases/rows: 2026 3. Variable list and defintion: > ID: unique identifier > X: x-coordinate of nest (coordinate reference system epsg:31370 - Lambert72) > Y: y-coordinate of nest (coordinate reference system epsg:31370 - Lambert72) > Presence: if presence or absence point (1/0) > RealNest: if actual nest or not (derived from previous datafile; see script 'ABC/Field data analyses/Extract_data_from_fieldrecords.R' on https://doi.org/10.5281/zenodo.5212680 for full definition/criteria) > InsPixel; NDVIPixel; SlPixel: Insolation, NDVI and slope values of the pixels at the nest and absence points (derived from maps in folder RS_GIS_data) > W01count; W01mean; W01stdev; NDVI01coun; NDVI01mean; NDVI01stde; Sl01count; Sl01mean; Sl01stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=0.1m at the nest and absence points (derived from maps in folder RS_GIS_data) > W02count; W02mean; W02stdev; NDVI02coun; NDVI02mean; NDVI02stde; Sl02count; Sl02mean; Sl02stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=0.2m at the nest and absence points (derived from maps in folder RS_GIS_data) > W05count; W05mean; W05stdev; NDVI05coun; NDVI05mean; NDVI05stde; Sl05count; Sl05mean; Sl05stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=0.5m at the nest and absence points (derived from maps in folder RS_GIS_data) > W1count; W1mean; W1stdev; NDVI1count; NDVI1mean; NDVI1stdev; Sl1count; Sl1mean; Sl1stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=1m at the nest and absence points (derived from maps in folder RS_GIS_data) > W2count; W2mean; W2stdev; NDVI2count; NDVI2mean; NDVI2stdev; Sl2count; Sl2mean; Sl2stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=2m at the nest and absence points (derived from maps in folder RS_GIS_data) > W3count; W3mean; W3stdev; NDVI3count; NDVI3mean; NDVI3stdev; Sl3count; Sl3mean; Sl3stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=3m at the nest and absence points (derived from maps in folder RS_GIS_data) > W5count; W5mean; W5stdev; NDVI5count; NDVI5mean; NDVI5stdev; Sl5count; Sl5mean; Sl5stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=5m at the nest and absence points (derived from maps in folder RS_GIS_data) > W10count; W10mean; W10stdev; NDVI10coun; NDVI10mean; NDVI10stde; Sl10count; Sl10mean; Sl10stdev: count (of pixels), mean and standard deviation of Insolation, NDVI & Slope at buffer=10m at the nest and absence points (derived from maps in folder RS_GIS_data) 4. Missing data codes: / 5. Specialized formats or other abbreviations used: scales (pixel, 01=0.1m, 02=0.2m, 05=0.5m, 1=1m, 2=2m, 3=3m, 5=5m, 10=10m); variables (see RS_GIS maps): W/Ins=warmth/insolation; NDVI=Normalized Difference Vegetation Index; Sl=Slope; measure: mean, count (pixel count), stdev (standard deviation) DATA-SPECIFIC INFORMATION FOR: RS_GIS_data/RS_GIS_CIR.tif (epsg:31370) Description: raw remote sensing data from drone flight on 16-8-2016 with CIR (color infrared) 1. Number of variables: 3 bands (1 empty 4th band) 2. Number of cases/rows: 9542 pixels x 7489 pixels (width x height) 3. Variable List: NIR-band in band 1 NIR (Near infrared); band 2 Green; band 3 Red (all ranging from 0 to 256) 4. Missing data codes: 0-0-0-0 (zero in all 4 bands) 5. Specialized formats or other abbreviations used: not applicable DATA-SPECIFIC INFORMATION FOR: RS_GIS_data/RS_GIS_DEM.tif (epsg:31370) Description: raw remote sensing data from drone flight on 16-8-2016 with DEM (digital elevation model) 1. Number of variables: 1 2. Number of cases/rows: 4166 pixels x 2143 pixels (width x height) 3. Variable List: elevation (m) 4. Missing data codes: 'no data'/'geen data' 5. Specialized formats or other abbreviations used: not applicable DATA-SPECIFIC INFORMATION FOR: RS_GIS_data/RS_GIS_NDVI.tiff (epsg:31370) Description: derived remote sensing data (from CIR) with NDVI (Normalized Difference Vegetation Index) 1. Number of variables: 1 2. Number of cases/rows: 9542 x 7489 pixels (width x height) 3. Variable List: Normalized Difference Vegetation Index (NDVI) 4. Missing data codes: 'no data'/'geen data' 5. Specialized formats or other abbreviations used: not applicable DATA-SPECIFIC INFORMATION FOR: RS_GIS_data/RS_GIS_insolation.tiff (epsg:31370) Description: derived remote sensing data (from DEM) with insolation (solar irradiance) 1. Number of variables: 1 2. Number of cases/rows: 1389 x 715 pixels (width x height) 3. Variable List: insolation/solar irradiance (watt hours per sqaure meter (WH/m2)) 4. Missing data codes: 'no data'/'geen data' 5. Specialized formats or other abbreviations used: not applicable DATA-SPECIFIC INFORMATION FOR: RS_GIS_data/RS_GIS_data/RS_GIS_slope.tif (epsg:31370) Description: derived remote sensing data (from DEM) with slope 1. Number of variables: 1 2. Number of cases/rows: 1389 x 715 pixels (width x height) 3. Variable List: Slope (%) 4. Missing data codes: 'no data'/'geen data' 5. Specialized formats or other abbreviations used: not applicable