Code and data: Understanding temporal variability across trophic levels and spatial scales in freshwater ecosystems

Code and data to reproduce the results in Siqueira et al. (submitted) published as a Preprint (https://doi.org/10.32942/osf.io/mpf5x)

The full set of results, including those made available as supplementary material, can be reproduced by running five scripts in the R_codes folder following this sequence:

01_Dataprep_stability_metrics.R

02_SEM_analyses.R

03_Stab_figs.R

04_Stab_supp_m.R

05_Sensit_analysis.R

and using the data available in the Input_data folder.

The original raw data made available include the abundance (individual counts, biomass, coverage area) of a given taxon, at a given site, in a given year. See details here https://doi.org/10.32942/osf.io/mpf5x

However, this is a collaborative effort and not all authors are allowed to share their raw data. One data set (LEPAS), out of 30, was not made available due to data sharing policies of The Ohio Division of Wildlife (ODOW). So, in code "01_Dataprep_stability_metrics.R" all data made available are imported, except the LEPAS data set. For this specific data set, code "01_Dataprep_stability_metrics.R" imports variability and synchrony components estimated using the methods described in Wang et al. (2019 Ecography; doi/10.1111/ecog.04290), diversity metrics (alpha and gamma diversity), and some variables describing the data set.

A protocol for requesting access to the LEPAS data sets can be found here:
https://ael.osu.edu/researchprojects/lake-erie-plankton-abundance-study-lepas

Dataset owner: Ohio Department of Natural Resources – Division of Wildlife, managed by Jim Hood, Dept. of Evolution, Ecology, and Organismal Biology, The Ohio State University. Email: [e-mail]

Anyone who wants to reproduce the results described in the preprint can just download the whole R project (that includes code and data) and run codes from 01 to 05.

I am making the whole R project folder (with everything needed to reproduce the results) available as a compressed file.

用于复现Siqueira等人（已投稿）预印本论文成果的代码与数据集（https://doi.org/10.32942/osf.io/mpf5x）

所有成果（含作为补充材料公开的内容）均可通过按顺序运行R_codes文件夹内的5个脚本复现，具体脚本序列如下：
01_Dataprep_stability_metrics.R
02_SEM_analyses.R
03_Stab_figs.R
04_Stab_supp_m.R
05_Sensit_analysis.R
并使用Input_data文件夹内的数据集。

本次公开的原始数据包含某一分类群（taxon）在特定年份、特定样地的丰度信息（涵盖个体计数、生物量、覆盖面积）。详细信息可参见：https://doi.org/10.32942/osf.io/mpf5x

不过本项目为协作研究成果，并非所有作者均有权限公开其原始数据。在30个数据集中共1个LEPAS数据集，因俄亥俄州野生动物管理局（The Ohio Division of Wildlife, ODOW）的数据共享政策限制无法公开。因此，在脚本01_Dataprep_stability_metrics.R中，将仅导入公开可用的数据集，而排除LEPAS数据集。针对该特定数据集，脚本01_Dataprep_stability_metrics.R会导入采用Wang等人（2019, 《Ecography》; doi/10.1111/ecog.04290）所述方法估算得到的变异性与同步性分量、多样性指标（α多样性与γ多样性），以及若干描述该数据集的变量。

获取LEPAS数据集的申请流程可参见：https://ael.osu.edu/researchprojects/lake-erie-plankton-abundance-study-lepas

数据集归属方：俄亥俄州自然资源部-野生动物管理局，由俄亥俄州立大学进化、生态与有机体生物学系Jim Hood负责管理。电子邮箱：[e-mail]

任何希望复现该预印本所述研究成果的人员，均可下载完整的R项目（包含复现所需的全部代码与数据）并依次运行01至05号脚本。

本人已将包含复现所有成果所需全部内容的R项目文件夹以压缩包形式公开。