AndreaBozzo/ceres-open-data-index huggingface dataset:
How to balance forestry and biodiversity conservation? - A view across Europe

Forests cover about a third of the European land area and provide a multitude of ecosystem services. They are subject to constant change and increasing demands with respect to the ecosystem services they provide. As well as provision of timber, non-timber forest goods (e.g. berries and mushrooms), clean water, carbon sequestration, and protection against natural disasters, there is increasing emphasis being placed on conservation and promotion of biodiversity within forests. However, the state of biodiversity in European forests varies widely. Because of the different biogeographic, sociocultural, political, and climatic conditions at small scales, there is a wide variety of situations, approaches, and legacies across the continent.
This book strives to show the challenges that forest managers are faced with to fulfil the societal demands with regard to forests, and especially to integrate the promotion of biodiversity. In a first section (12 chapters), 44 authors from science, policy, and practice describe  the driving factors of forest management; these factors include national laws and legacies, ownership structures, forest history, and socio-structural conditions. In a second section, 113 authors present 32 case examples from 19 European countries that demonstrate the different approaches to integrate the locally requested ecosystem services. These experiences are synthesised in a final section, and a toolbox of integrative measures is presented that is intended to support forest owners and managers to choose appropriate measures for targeted integrated management in their forests.
Copyright reserved WSL and EFI.

Tags: biodiversity, europe, integrative-forest-management, multifunctional-forestry, timber-production
Simulation data and analyses of regional food web robustness under habitat loss

This dataset contains all processed data, simulation outputs, and R/Python scripts used to assess the robustness of regional multi-habitat food webs in Switzerland under various non-random species extinction scenarios. It accompanies the manuscript submitted to Communications Biology, and available as a preprint here: 
Reji Chacko, M,  Albouy, C., Altermatt, F., et al. Decreases in the robustness of regional food webs to sequential species extinctions following habitat loss, 04 December 2024, PREPRINT (Version 1) available at Research Square [https://doi.org/10.21203/rs.3.rs-5225132/v1]
Please note that the most up-to-date version of the simulations code is available here: https://github.com/mrejichacko/casCHades

Tags: food-webs, habitat-fragmentation, metaweb, network-analysis, robustness, trophic-networks, trophich
Swiss FluxNet Site Lägeren

The Swiss FluxNet Site Lägeren is a managed mixed deciduous mountain forest located on the steep Lägeren mountain (NW of Zurich, Swiss Plateau). The forest is highly diverse, dominated by beech, but also including ash, maple, spruce and fir trees. Eddy covariance flux measurements were started in April 2004. The site was part of the international CarboEurope IP network and the National Air Pollution Monitoring Network (NABEL). In addition to Swiss FluxNet, the site is part of the Long-term Forest Ecosystem Research (LWF) of WSL and the biological drought and growth indicator network (TreeNet) of WSL.
Measurements
- Ecosystem flux measurements of CO2, H2O vapour are performed with the eddy-covariance method. This method is based on measurements of trace gas mixing ratios, using infrared gas analyzers (for CO2, H2O vapor), combined with wind speed and wind direction measurements, using 3D sonic anemometers. To resolve the short-term turbulent fluctuations in the atmosphere, very fast measurements are needed: we measure at 10-20 Hz, i.e., 10-20 times per second. To assess the energy budget of each ecosystem, also radiation sensors and soil climate profiles are installed at the site.
- Sub-canopy eddy fluxes (CO2, H2O), soil respiration campaigns
- Continuous CO2 profile measurements.
- Auxiliary micrometeorology and soil climate measurements.
Data availability
All data are available from the European Fluxes Database Cluster, but are also part of Fluxnet2015 dataset.
Data policy
ICOS data license: 
[https://www.icos-cp.eu/data-services/about-data-portal/data-license](https://www.icos-cp.eu/data-services/about-data-portal/data-license)
Detailed site info: 
[https://www.swissfluxnet.ethz.ch/index.php/sites/ch-lae-laegeren/site-info-ch-lae//](https://www.swissfluxnet.ethz.ch/index.php/sites/ch-lae-laegeren/site-info-ch-lae/)

Tags: eddy-covariance, flux, forest, greenhouse-gas, meteorological-measurements, swiss-fluxnet, swiss-forest-lab
TreeNetAI

A Toolbox designed around neural networks for time series analysis of TreeNet data. The software containing the machine learning models is stored as a repository on GitHub (https://github.com/treenet/treenetai) and licensed under GNU GENERAL PUBLIC LICENSE version 3.
TreeNet (treenet.info) is an international monitoring and research network in which automated tree stem radius fluctuations measured with point dendrometers are analyzed in terms of forest ecosystem responses to climate change. A continuous stream of microclimate and tree physiology data provides realtime information on tree water relations and tree growth.
TreeNet aims to link research results from carbon flux sites with dendrometer data to entire landscapes. Further it provides online-tools to its partners to automatically interpret stem radius fluctuations in terms of tree water deficit, wood growth and related indicators for forest ecosystem carbon sink and drought stress.
The project was initiated by Roman Zweifel, WSL and Werner Eugster, ETHZ in 2009.

Tags: dendrometer, drought-stress, machine-learning, software, stem-radius-changes, time-series, tree-growth, tree-water-deficit, treenet
Swiss Canopy Crane II research site

![alt text](https://www.envidat.ch/dataset/fc69e369-eee9-42ab-8486-d2c38cff317d/resource/68fa7065-de32-4343-aa26-71094c5254ae/download/sccii.jpg "Swiss Canopy Crane II")
This research site is located near Hölstein in Canton Basel-Landschaft in a mature temperate forest that harbours more than 400 trees from 14 different species. The 1.6 ha site is equipped with the latest infrastructure, including 60 automated point dendrometers, automated soil respiration chambers, 72 ceramic suction cups at various locations and depths across the site, and a range of automated environmental sensors in the soil, the forest floor and in the canopy. A key piece of infrastructure is the new Swiss Canopy Crane II (SCC II), a 50 m tall crane with a 50 m jib that provides canopy access to 250 trees from 12 different species.

Tags: climate-change, damage-of-tree, drought, ecosystem-functions, forest, infrastructure, swiss-forest-lab
Data analysis toolkits

These are condensed notes covering selected key points in data analysis and statistics.  They were developed by James Kirchner for the course "Analysis of Environmental Data" at Berkeley in the 1990's and 2000's.  They are not intended to be comprehensive, and thus are not a substitute for a good textbook or a good education!
License: These notes are released by James Kirchner under a Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0) license.

Tags: bayesian-inference, data-analysis, error-propagation, hypothesis-testing, statistics, uncertainty
Escarpment evolution drives the diversification of the Madagascar flora

Although much of the endemic biodiversity of Madagascar can be attributed to its isolation as an island in the Indian Ocean, the high rates of speciation throughout its geologic history suggest an influence of local-scale landscape dynamics. The topographic evolution of Madagascar is dominated by the formation of high-relief continental rift escarpment and we argue that the erosion and landward retreat of this topography creates habitat heterogeneity that has served as a speciation pump for the island. The highest plant richness is found along the escarpment and is characterized by steady diversification rates over the last 45 Ma. Modeled landscape evolution by escarpment retreat demonstrates opportunities for allopatric speciation by transient habitat fragmentation through multiple mechanisms, including catchment expansion, isolation of highland remnants and formation of topographic and river barriers The segregation of floral phylogenetic turnover parallel to the escarpment is consistent with these mechanisms and indicates the importance of erosion-driven landscape dynamics on speciation.

Tags: endemism, flora, geology, landscape-evolution, madagascar
FORHYCS v. 1.0.0 model code

Model code, technical documentation and auxiliary files for the dynamic ecohydrological model FORHYCS (FORests and HYdrology under Climate change in Switzerland). FORHYCS combines two pre-existing models, the hydrological model PREVAH and the forest landscape model TreeMig. 
License: GPL v3

Tags: climate-change-impact, forest, forest-dynamics, hydrology, modeling
Wind-Topo_model

Wind-Topo is a statistical downscaling model for near surface wind fields especially suited for highly complex terrain.
It is based on deep learning and was trained (calibrated) using the hourly wind speed and direction from 261 automatic measurement stations (IMIS and SwissMetNet) located in Switzerland. The periods 1st October 2015 to 1st October 2016 and 1st October 2017 to 1st October 2018 were used for training. The model was validated using 60 other stations on the period 1st October 2016 to 1st October 2017. Wind-Topo was trained using COSMO-1 data and a 53-meter Digital Elevation Model as input.
This dataset provides all the necessary code to understand, use and incorporate Wind-Topo in a new downscaling scheme. Specifically, the dataset contains the architecture of Wind-Topo and its optimized parameters, as well as a python script to downscale uniform wind fields with a prescribed vertical profile for any given 53-meter DEM.
Accompanies the publication "Wind-Topo: Downscaling near-surface wind fields to high-resolution topography in highly complex terrain with deep learning" Dujardin and Lehning, Quarterly Journal of the Royal Meteorological Society, 2022. https://doi.org/10.1002/qj.4265
Please cite this publication if you use Wind-Topo or derive new models from it.
The code can be used under the GNU Affero General Public License (AGPL).

Tags: complex-terrain, convolutional-neural-networks, downscaling, high-resolution, machine-learning, meteorology, surface-winds, topography
Nuclear microsatellite genotypes of the butterfly Melanargia galathea

Individual genotypes assessed at six nuclear microsatellite loci (two alleles per locus) for individuals of the butterfly Melanargia galathea (Marbled white) that were collected throughout Switzerland, along the regular grid of the Biodiversity Monitoring (BDM) of Switzerland. For each individual, the sampling site (number) and the genotype are given. Note that due to privacy restrictions, the original geographic coordinates remain disclosed. For original coordinates, data holders should be contacted (Swiss Federal Office for the Environment; Biodiversity Monitoring Switzerland).
The data refer to the following publication: Terzer et al., Distinct spatial patterns of genetic structure and diversity in the butterfly Marbled White (Melanargia galathea) inhabiting fragmented grasslands. Conservation Genetics, https://doi.org/0.1007/s10592-023-01593-4.

Tags: conservation-genetics, genetic-diversity, genetic-structure, melanargia-galathea, monitoring
Sample plot inventory data form the Parc Naturel du Jorat

The Jorat is one of the largest continously forested areas in the Swiss Plateau. On a forested area of 778 ha, the Parc Naturel du Jorat (PNJ), a periurban parc, has been established in 2022. To document the initial state of the forest within the perimeter of the PNJ, a sample plot inventory (SPI) was carried out on 132 sample plots (SP) in winter 2021/22.  
This dataset contains results from this sample plot inventory. It consists of the following files:    
- results_trees.csv: Results for or living and dead trees.  
- results_regeneration.csv: Results for trees with DBH - 7.0 cm, assessed in three height classes.  
- results_lying_deadwood.csv: Results for lying deadwood, assessed no three line transects   
- results_trems.csv: Results for occurence of tree related microhabitats (TreMs) 
- results_habitat_trees.csv: Results for occurence / densities of trees carrying at least one TreM or with a DBH -= 80 for living trees or -= 36 cm for dead trees respectively.  
- lookup.csv: Contains lookup tables which describe the respective results in-depth.  
- data_description.pdf: Briefly describes the datasets mentioned above.

Tags: beech, forest-in, forest-reserves, swiss-plateau, temperate-forests
Nuclear microsatellite genotypes of Pinus cembra

The dataset contains individual genotypes at 11 nuclear microsatellite markers of samples of Swiss stone pine (*Pinus cembra*). Samples were collected in 12 natural and presumably planted stands in the canton of Fribourg (Switzerland). The dataset is complemented by individual genotypes (same markers) from samples of a subset of 40 populations across the European Alps (taken from Gugerli et al., Journal of Biogeography 2023; https://doi.org/10.1111/jbi.14586; dataset archived at Dryad, https://doi.org/10.5061/dryad.866t1g1v6).

Tags: afforestation, genetic-structure, molecular-markers, pinus-cembra, reproductive-matieral
Plant species list from 1775 and 2020 for Uetliberg Zürich

The list gives the clearly identifiable plant species from Schinz (1775). Die Reise auf den Uetliberg. Verlag des Waysenhauses, Zürich). Several species given in Schinz (1775) are not identifiable to the species level and are not included in the list. Similarly, *Vicia pisiformis*, Erbsenartige Wicke, given by Schinz (1775) is probably a misidentification and also not included in the list.   
Latin plant species name Schinz 1775: Latin plant name (if) given by Schinz (1775); na: not available
German plant species name Schinz 1775: German plant name given by Schinz (1775)
Latin plant species name Info Flora 2024: Latin plant name according to www.infoflora.ch in 2024
German plant species name Info Flora 2024: German plant name according to www.infoflora.ch in 2024
Plant species still occurring in 2020: Plant species given in Schinz (1775) still occurring at the Uetliberg in 2020 (Zürcherische Botanische Gesellschaft. 2020. Flora des Kanton Zürich. Haupt, Bern); occurrence of *Thesium alpinum*, Alpen-Bergflachs, according to floristic knowledge of Rolf Holderegger and Michèle Büttner; 1: still occurring; 0: no longer occurring / extinct.

Tags: flora-change, occurrence, plant-species, uetliberg, zurich
Simulation parameters and outputs for a rigorous approach to the specific surface area evolution in snow during temperature gradient metamorphism

In the associated study [1], two time-lapse temperature gradient metamorphism series of three-dimensional micro-computed tomography images of snow (obtained by [2]) have been used to model the decrease of specific surface area (SSA) over time based on the pore-scale physics. We conducted finite element simulations of one-way coupled heat and mass diffusion in order to estimation the spatial pattern of water vapor deposition and sublimation, which controls the evolution of the SSA over time. We notably studied the influence of the condensation coefficient, a key but poorly constrained physical parameter.
This dataset provides the parameters used for the mesh generation and the finite element simulations. It also includes the ice fraction, specific surface area per unit volume and surface average of mean curvature and vapor field obtained as outputs from the mesh process and the simulations.
[1]: Braun, A., Fourteau, K., and Löwe, H.: A rigorous approach to the specific surface area evolution in snow during temperature gradient metamorphism, EGUsphere [preprint], https://doi.org/10.5194/egusphere-2023-1947, 2023.
[2]: Pinzer, B. R., Schneebeli, M., and Kaempfer, T. U.: Vapor flux and recrystallization during dry snow metamorphism under a steady temperature gradient as observed by time-lapse micro-tomography, The Cryosphere, 6, 1141–1155, https://doi.org/10.5194/tc-6-1141-2012, 2012.

Tags: fem, metamorphism, microstructure, snow, time-series, x-ray-tomography
Repeated detection-nondetection data of corticolous lichens from a standardised monitoring across Switzerland

The available lichen data consists of detection/nondetection data (1/0) of 373 tree-inhabiting (*corticolous*) lichen species from 416 plots surveyed 1-2 times. The lichen data were originally collected for the purpose of the Red List of epiphytic lichen species in Switzerland ([Scheidegger *et al.* 2002](https://www.bafu.admin.ch/bafu/de/home/themen/biodiversitaet/publikationen-studien/publikationen/rote-liste-gefaehrdete-arten-baum-erdbewohnende-flechten.html)), but updated to recent nomenclature for the purpose of this study.
This repository contains all the supporting data and R code for the paper:
von Hirschheydt, G., Kéry, M., Ekman, S., Stofer, S., Dietrich, M., Keller, C., Scheidegger, C. (2024) **Occupancy model reveals limited detectability of lichens in a standardised large-scale monitoring**. *Journal of Vegetation Science*.
Results and figures presented in the manuscript should be reproducible (with small differences in the latter digits due to stochasticity of the MCMC sampler) with the provided data and code.
The downloadable `.zip` folder has the following structure:
* `0_data/`
* `1_code/`
* `2_output/`
* `lichen_detectability.Rproj`
* `README.txt`
* `workflow.html`
- `workflow.Rmd` 
    
The main folder and the three subordinate folders each have their own `README*.txt` file. These describe each available file in detail and should be consulted prior to using the data or running any code. The file `lichen_detectability.Rproj` stores the information about the R project. The user can open the project by clicking/double-clicking on this file which will automatically define the repository as working directory for the R session. If the user does not use RStudio/Posit, they may have to set the working directory manually to the stored location in the R files. The files `workflow.*` guide the user through the analysis (`1_code/*.R`) in the correct order so that they can:
- bundle the cleaned data into a data list readable for JAGS
- fit the multi-species occupancy model to the data and store the output
- assess the goodness-of-fit of the model to the data
- conduct a prior sensitivity analysis with 2 additional sets of priors
- extract the summary statistics reported in the manuscript and supplementary materials
- generate the figures shown in the manuscript and supplementary materials

Tags: bayesian-inference, biodiversity, cryptogams, detectability, detection-probability, inter-observer-difference, lichens, monitoring, observer-error, occupancy-model, sessile-species, swisslichens
Ring wind tunnel experiments - airborne snow metamorphism and stable water isotopes

This dataset collection contains all datasets collected during the ring wind tunnel experiments in January and May 2023 at the SLF cold laboratory facilities in Davos. A full description of the experiment set-up can be found in Wahl et al. (2024). The collection contains data from 19 experiments. The dataset collection entails measurements of the stable water isotopic composition of snow samples and the water vapour inside the wind tunnel, measurements of the meteorological variables inside the wind tunnel and snow sample properties as measured with microCT measurements (sphere size distribution and specific surface area (SSA)).

Tags: blowing-snow, cold-lab, drifting-snow, experiments, metamorphism, snow-saltation, water-isotopes, wind-tunnel
Understanding snow saltation parameterizations - Reproducibility

This dataset includes the necessary files to reproduce the results presented in Melo et al. (2024):
- code version used in the simulations (also available at the institutional [GitLab repository](https://gitlabext.wsl.ch/atmospheric-models/les-lsm) - tag 'r2024')
- input files to run the simulations
- post-processing scripts (MATLAB and FORTRAN)
- selected raw output files
- post-processed results (MATLAB data files).
 	**Note:** Direct model outputs are not provided because of their size, but they can be shared upon request. They can be reproduced by running the code. The post-processed results allow you to reproduce all figures in Melo et al. (2024).

Tags: aerodynamic-entrainment, drifting-snow, large-eddy-simulation, saltation-parameterizations, snow-saltation, splash
Nutrient sustainability in beech forests

With this study, our aim was to estimate the nutrient fluxes relevant for assessing nutrient sustainability as accurately as possible and to calculate nutrient balances for alternative forest management scenarios. Furthermore, we tested whether mapping units from existing geologic maps can serve as a basis for forest practitioners to estimate nutrient sustainability or whether more detailed data is needed. Positive fluxes include deposition and weathering, while negative fluxes include losses due to leaching and nutrient removal through timber harvesting in the balance. Weathering and leachate losses were modeled with a geochemical model. The SwissStandSim model was used to simulate the biomass growth under different harvesting and silvicultural strategies, allowing sustainability to be assessed for each nutrient at a given intensity of use. This assessment was made per rotation period of 100 years based on two criteria: i) nutrient supply; and ii) total stocking volume.

Tags: beech, mass-balance, nutrient, soil, sustainability
Monitoring data sets of alpine photovoltaic power-plants

On this repository you can find the monitoring data of the 3 PV power-plants analysed in the article _"Confirmation of the power gain for solar photovoltaic systems in alpine areas"_ (doi: 10.3389/fenrg.2024.1372680) . Each folder contains the following two elements:
1.  **README.txt**  : describes the content of the folder. Especially it describes the plant's monitoring system's architecture and relates it to the various files included in the data sub-folder.  It also provides a detailed description of all processing steps leading to the data sets as available in the data sub-folder and used in the pre-cited article. 
3. **data/** : sub-folder containing the file(s) used in the referenced article.

Tags: alps, bifaciality, photovoltaic, snow, winter-electricity
European Beech tree-ring dataset 1952-2020

This dataset contains the raw ring-width and climate data (1952-2020), as well as the R code to run the model and the model output used in the research article "No future growth enhancement expected at the northern edge for European beech due to continued water limitation".

Tags: beech, dendrochronology, dendroecology, fagus-sylvatica, network-analysis, tree-ring
Revision des Gesetzes über die Bekämpfung der Schwarzarbeit (GSA)

Schlussresultate der kantonalen Abstimmung "Revision des Gesetzes über die Bekämpfung der Schwarzarbeit (GSA)", 7. März 2021, Kanton Basel-Landschaft, aufgeschlüsselt nach Gemeinden.

Tags: abstimmung, cantonal, cantonale, kantonal, plaun-chantunal, votation, votazione, votaziun
Bundesbeschluss vom 20. Dezember 2019 über die Genehmigung des Umfassenden Wirtschaftspartnerschaftsabkommens zwischen den EFTA-Staaten und Indonesien 

Schlussresultate der eidgenössischen Abstimmung "Bundesbeschluss vom 20. Dezember 2019 über die Genehmigung des Umfassenden Wirtschaftspartnerschaftsabkommens zwischen den EFTA-Staaten und Indonesien ", 7. März 2021, Kanton Basel-Landschaft, aufgeschlüsselt nach Gemeinden.

Tags: abstimmung, federal, national, nazionale, plaun-naziunal, votation, votazione, votaziun
Volksinitiative vom 15. September 2017 «Ja zum Verhüllungsverbot» 

Schlussresultate der eidgenössischen Abstimmung "Volksinitiative vom 15. September 2017 «Ja zum Verhüllungsverbot» ", 7. März 2021, Kanton Basel-Landschaft, aufgeschlüsselt nach Gemeinden.

Tags: abstimmung, federal, national, nazionale, plaun-naziunal, votation, votazione, votaziun