This repository holds data, code, figures and text files for the paper Roalkvam, I. 
The output from the GIS analyses is available in the directory gis_output, making it possible to skip straight to the statistical treatment in R. See section 5 below for licences associated with the contents of the repository.
.
├── gis_data
│ ├── sites.gpkg # Spatial geometries for sites.
│ ├── lakes.gpkg # Present day lakes.
│ ├── sediments.gpkg # Sediment data.
│ ├── reg_split_north.gpkg # Polygon for the northern Gunnarsrød region.
│ ├── reg_split_south.gpkg # Polygon for the southern Bamble region.
│ ├── studyarea # Holds 10 m resolution DTM tiles for study area.
│ ├── region # Holds 25 m resolution DTM tiles for larger region.
│ └── shoreline
│ ├── bamble_curve.csv # Shoreline displacement curve for Bamble.
│ ├── gunnarsrod_curve.csv # Shoreline displacement curve for Gunnarsrød.
│ ├── recode_bamble.txt # Shoreline displacement for Bamble, formated for r.recode.
│ └── recode_gunnarsrod.txt # Shoreline displacement for Gunnarsrød, formated for r.recode.
├── python
│ └── analysis.py # Python script used to run analyses in GRASS GIS.
├── gis_output
│ ├── site_data.csv # Result of GIS analysis for sites.
│ └── sample_data.csv # Result of GIS analysis for random sample locations.
│ └── maps # Holds precompiled maps for visualisation.
├── r
│ ├── meso_patterns.Rproj # RStudio project (open this first when running the script).
│ ├── analysis.R # Main R script.
│ └── functions
│ ├── functions.R # Functions for analysis.r
│ └── plot_functions.R # Functions for analysis.r used to unpack and plot results.
├── figures # Holds all final figures used in the text.
└── latex # Holds raw article PDF and associated LaTeX files.
All GIS analyses were run in GRASS GIS 7.6.1 (GRASS Development Team 2017) with the v.centerpoint extension on Windows 10. These were run using a Python 2.7 script (Python Software Foundation) with the numpy module (van der Walt et al. 2011). The coordinate system used is WGS84/UTM zone 32N (EPSG:32632). The Python script has to be run from a GRASS mapset with the correct coordinate system (some additional instructions on how to run the script are given at the top of analysis.py which can be opened in a text editor). The script took about 35 days to execute on a laptop computer with an Intel Core i7-8550U 1.8GHz CPU (a crash makes this estimation imprecise). Additionally, QGIS 3.6.3 (QGIS Development Team 2019) and ArcGIS 10.6 (Esri 2018) were used for some of the visualisation.
The statistical analyses were run using R 3.6.3 (R Core Team 2020) on Ubuntu 18.04. Additional libraries used were boot (Canty & Ripley 2019; Davison & Hinkley 1997), car (Fox & Weisberg 2019), caret (Kuhn 2019), cowplot (Wilke 2019), GGally (Schloerke et al. 2018), ggplot2 (Wickham 2016), gridExtra (Auguie 2017), mice (van Buuren & Groothuis-Oudshoorn 2011), ModelMetrics (Hunt 2018), png (Urbanek 2013), randomForest (Liaw & Wiener 2002), reshape2 (Wickham 2007) and scales (Wickham & Seidel 2020). The main script is analysis.R. This loads functions from functions.R and plot_functions.R. The complete R script ran in 12.27 hours on a laptop computer with an AMD Ryzen 5 Pro 3500U 2.1GHz CPU.
Apart from changing file formats and coordinate systems, as well as reducing the extent of some data, spatial data from other sources are provided in their original form. This is with the exception of sites.gpkg.
sites.gpkg is the site data as prepared for analysis. This is originally open data from the Directorate for Cultural Heritage which has been manually cleaned to resolve issues with a few overlapping polygons. The 'askeladden_id' column in the attributes of sites.gpkg can be used to extract the same original data.
Site data: https://kartkatalog.geonorge.no/metadata/c6896f24-71f9-4203-9b6f-faf3bfe1f5ed
Stray finds: https://kartkatalog.geonorge.no/metadata/17150d2c-b50d-4792-80f4-0cb2ec5eaa79
The site data has additionally been given a quality score based on the information available from the database Askeladden, associated with the spatial geometries (see article for more on this). The database is run by the Directorate for Cultural Heritage. This is not open, but researchers, students, and cultural resource management personell can apply for access: https://askeladden.ra.no/Askeladden (the page is currently only available in Norwegian). The sites can be found using the IDs provided in the column 'askeladden_id' of sites.gpkg.
The following data are under the Norwegian Licence for Open Government Data (NLOD) 2.0:
- sites.gpkg is slightly modified site data originally provided by the Norwegian Directorate for Cultural Heritage (see section 4 above).
- lakes.gpkg is from "the Norwegian lake database" as provided by the Norwegian Water Resources and Energy Directorate (page only available in Norwegian).
- sediments.gpkg is from "Sediments" as provided by the Geological Survey of Norway.
- GeoTIFF files in gis_data/studyarea/ are from "National elevation model DTM10" as provided by the Norwegian Mapping Authority.
GeoTIFF files in gis_data/region/ are from EU-DEM v.1.1 as provided by the European Union, Copernicus Land Monitoring Service 2018, European Environment Agency. This is open and free following the Copernicus data and information policy Regulation (EU) No 1159/2013 of 12 July 2013: https://eur-lex.europa.eu/legal-content/EN/TXT/?uri=CELEX%3A32013R1159
The following files are based on shoreline displacement data derived from Sørensen et al. 2015, available in Solheim 2017, and Sørensen et al. 2014. Both are under CC BY-NC 4.0:
- bamble.csv, gunnarsrod.csv, recode_bamble.txt, recode_gunnarsrod.txt
The remaining data in this repository are released under CC0.
Text under CC BY 4.0.
Code under MIT. Year: 2020, holder: Isak Roalkvam
Auguie, G. 2017. gridExtra: Miscellaneous Functions for "Grid" Graphics. R package version 2.3. https://CRAN.R-project.org/package=gridExtra
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Sørensen, R., H. Høeg, & V. Gälman 2015. Revidert strandlinjeforskyvningskurve for Bamble. Technical report. Report for the Project E18 Rugtvedt-Dørdal. Museum of Cultural History, Unversity of Oslo.
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