TobiasRoth/Haymeadow-sensitivity-to-NDep

Data and R-scripts to reproduce the results presented in the MS "The Sensitivity of hay meadow species diversity to nitrogen deposition".

The Sensitivity of hay meadow species diversity to nitrogen deposition

This repository contains all the materials needed to reproduce the analyses in:

Roth, T., Bergamini, A., Kohli, L., Meier, E., Rihm, B. (in Prep): Sensitivity of hay meadows to Nitrogen deposition is mediated by soil properties. To be submitted to Science of The Total Environment.

Raw data for analyses are provided in the folder Data-Raw and the folder R contains the R-Script that was used to produce the reported figures and tables. The folder Appendix contains the R Markdown-files to produce the appendices. An R Markdown document is written in markdown (plain text format) and contains chunks of embedded R code to produce the figures and tables.

In the following we shortly describe the content of each folder of the repository:

Appendix

R-Markdown-Files to produce the appendices.

Data-Original (excluded from public GitHub)

All data needed to prepare the data files with the raw data that is used for the analyses in the paper. The folder contains the following files:

• Data_preparation.R: To prepare the raw data files needed in the paper. Also makes figures used to document the data-collection process.
• 1775_Standorte_Monitoringprogramme_v1.xlsx: List of location of sampling sites from the three monitoring programs.
• 20210527.csv: List mit survey-IDs from ALL-EMA
• ndep_klim_v210611.xlsx: NDep data including pH provided by [[Beat Rihm]] .
• sites-2020-10-01.xlsx: Site-specific predictor variables provided by WSL.
• description-2020-10-01.xlsx: Description of site-specific variables provided by WSL.
• all_monit_vegetationtype_indvalue_20201130_all.txt: All monitoring data including habitat specification by WSL.

Data-raw (not yet uploaded -==-> needs permission from data owner==)

• Data_sites.csv: Site-specific data for alle sites from the three national monitoring programs
• community_matrix.RData: Sites x species community matrix in R data format (.RData).

Figures

Folder that contains figures with key results of the analyses. All the files in this folder are produced by one of the R-Skripts in folder R.

Modres

In this folder, the results of the applied models are temporarily stored as brms output.

R

Scripts to reproduce all results from the MS. The folder contains the following R-Skripts:

• Analysis_main.R: R script to produce the main analyses as described in the paper including change-point analyses and SEM.