DOI: 10.16904/envidat.437
title: Soil and climate dependent ingrowth inference

description: The files contain the data used in Flury et al. "Soil and climate-dependent ingrowth inference: broadleaves on their slow way to conquer Swiss forests" published in the scientific journal Ecography, 2023 (10.1111/ecog.07174).
The data stored here were derived from the Swiss NFI1-4 and the already available data of NFI5 until the end of 2022.
The raw data from the Swiss NFI can be provided free of charge within the scope of a contractual agreement (http://www.lfi.ch/dienstleist/daten-en.php).
The files 'Data Figure 2' to 'Data Figure 6' are publicly available and contain the data used to produce the figures from the manuscript "Soil and climate-dependent ingrowth inference: broadleaves on their slow way to conquer Swiss forests". The R code which enables the reproduction of these figures is available in 'R-source.zip'.
The analysis of this data was done with the statistical software R (R version 4.2.2).
description: Resource Title: Data for figure 2
 Size: 9897012 bytes
 Format: application/octet-stream
 URL: https://www.envidat.ch/dataset/548544ad-8542-42db-bd80-f1705e7419ad/resource/6dc15ebc-3cdc-4c52-94c2-041930214241/download/figure2.rdata
 Description: The R Data container contains the necessary R objects to reconstruct Figure 2, visualizing the effects that drive the number of ingrowth trees from Flury et al. (2023). These objects include the model effects and confidence intervals from the zero-inflated Poisson model (zip_fitaic, summary_zip,), the predicted number of ingrowth trees per production region for NFI4 and NFI5 (mean_freq, sd_freq, mean_freq5, sd_freq5, true_freq, true_freq5), and auxiliary objects (neffects, x_axis predictors, predictor_is). Use the file figure2.R in Resource R-source.zip to reconstruct Figure 2 with this data.
description: Resource Title: Data for figure 3
 Size: 174778 bytes
 Format: application/octet-stream
 URL: https://www.envidat.ch/dataset/548544ad-8542-42db-bd80-f1705e7419ad/resource/5a46fe51-e710-416e-ad1b-95c8ad0329b8/download/figure3.rdata
 Description: The R Data container contains the necessary R objects to reconstruct Figure 3, visualizing the effects that drive the species of ingrowth trees from Flury et al. (2023). These objects include the model effects and confidence intervals from the multinomial model (coefs, confint), the predicted species of ingrowth trees per production region for NFI4 and NFI5 (species_prodreg4, species_prodreg5, nfi4_species_prodreg_prop, nfi5_species_prodreg_prop), and auxiliary objects (neffects, this_species). Use the file figure3.R in Resource R-source.zip to reconstruct Figure 3 with this data.
description: Resource Title: Data for figure 4
 Size: 8972 bytes
 Format: application/octet-stream
 URL: https://www.envidat.ch/dataset/548544ad-8542-42db-bd80-f1705e7419ad/resource/5d6135af-f48d-43f7-9225-7bc617068cf1/download/figure4.rdata
 Description: The R Data container contains the necessary R objects to reconstruct Figure 4, visualizing the effects that drive the dbh of ingrowth trees from Flury et al. (2023). These objects include the model effects and confidence intervals from the Weibull-likelihood model (effects, lower, upper, lower10, upper10), the predicted species of ingrowth trees per production region for NFI4 and NFI5 (mean_freq, mean_freq5, true_freq, true_freq5, sd_freq, sd_freq5), and auxiliary objects (nHbart).
Use the file figure4.R in Resource R-source.zip to reconstruct Figure 4 with this data.
description: Resource Title: Data for figure 5
 Size: 14643 bytes
 Format: application/octet-stream
 URL: https://www.envidat.ch/dataset/548544ad-8542-42db-bd80-f1705e7419ad/resource/7faa24ac-c943-47c7-8ef3-665321a3a5e2/download/figure5.rdata
 Description: The R Data container contains the necessary data (results_ha) to reconstruct Figure 5, visualizing the projected ingrowth development per hectare from Flury et al. (2023). Use the file figure5.R in Resource R-source.zip to reconstruct Figure 5 with this data.
description: Resource Title: Data for figure 6
 Size: 135247 bytes
 Format: application/octet-stream
 URL: https://www.envidat.ch/dataset/548544ad-8542-42db-bd80-f1705e7419ad/resource/83ff791a-d803-4cc6-9f00-256000a0cf49/download/figure6.rdata
 Description: The R Data container contains the necessary R objects (hbart_ch_years, hbart_ch_years_r, hbart_ch_years_a) to reconstruct Figure 6, visualizing the projected shift of tree species compositions from Flury et al. (2023). Use the file figure6.R in Resource R-source.zip to reconstruct Figure 6 with this data.
description: Resource Title: R Code for figures 2-6
 Size: 10243 bytes
 Format: application/x-zip-compressed
 URL: https://www.envidat.ch/dataset/548544ad-8542-42db-bd80-f1705e7419ad/resource/c8abd469-7607-4274-87f2-f81cc646daef/download/r-source.zip
 Description: This zip file contains five R scripts to reconstruct Figures 2-6 from Flury et al. (2023). Each script runs independently of the others, and the necessary data can be found in the respective Data container.