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index.Rmd
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# Overview
Here we provide the analysis of the environmental impact of a "run-of-river" hydropower plant on the riverine ecosystem of the Saldur stream, a glacier-fed stream located in the Italian Central-Eastern Alps.
This analysis is associated with the paper: [Small hydropower – small ecological footprint? A multi-annual environmental impact analysis using aquatic macroinvertebrates as bioindicators. Part 1: effects on community structure][1].
[1]: https://www.frontiersin.org/articles/10.3389/fenvs.2022.902603/abstract
## Data
The original data are hosted by "PANGAEA - Data Publisher for Earth & Environmental Science". The data repository is located [here][2].
From this original file we derived all the data files included and stored in our GitHub repository in the [data][3] folder, which were used for the analyses mentioned below.
[2]: https://doi.pangaea.de/10.1594/PANGAEA.922524
[3]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/tree/main/data
## Analysis
The analysis of similarities, spatial and temporal beta-diversity calculations, and indicator taxa analysis are presented in the script [analysis/anosim_beta_multipatt.R][4].
Below you find HTML reports for the Before-After-Control-Impact (BACI) analysis using the GLMM framework for the following variables:
- <a href="baci-n0.html">taxonomic richness (N0)</a>, generated from [baci-n0.Rmd][5];
- <a href="baci-density.html">density (individuals/m2)</a>, generated from [baci-density.Rmd][6];
- <a href="baci-ept.html">% Ephemeroptera–Plecoptera–Tricoptera (% EPT)</a>, generated from [baci-ept.Rmd][7];
- <a href="baci-e10.html">Shannon evenness (Hill’s ratio, E10)</a>, generated from [baci-e10.Rmd][8];
- <a href="baci-e20.html">Simpson evenness (Hill’s ratio, E20)</a>, generated from [baci-e20.Rmd][9];
[4]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/blob/main/analysis/anosim_beta_multipatt.R
[5]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/blob/main/analysis/baci_glmm/baci-n0.Rmd
[6]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/blob/main/analysis/baci_glmm/baci-density.Rmd
[7]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/blob/main/analysis/baci_glmm/baci-ept.Rmd
[8]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/blob/main/analysis/baci_glmm/baci-e10.Rmd
[9]: /~https://github.com/valentinitnelav/Saldur-ROR-analysis/blob/main/analysis/baci_glmm/baci-e20.Rmd
## Information About the R Session
Information About the Current R Session at the time of running the BACI analysis:
```r
> sessionInfo()
R version 4.0.4 (2021-02-15)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04.2 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=de_DE.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=de_DE.UTF-8
[6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=de_DE.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=de_DE.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods base
other attached packages:
[1] directlabels_2021.1.13 ggplot2_3.3.3 magrittr_2.0.1 data.table_1.13.6 DHARMa_0.3.3.0 lsmeans_2.30-0
[7] emmeans_1.5.4 AICcmodavg_2.3-1 glmmTMB_1.0.2.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.6 mvtnorm_1.1-1 lattice_0.20-41 zoo_1.8-8 assertthat_0.2.1 digest_0.6.27 unmarked_1.0.1
[8] foreach_1.5.1 R6_2.5.0 plyr_1.8.6 stats4_4.0.4 evaluate_0.14 coda_0.19-4 pillar_1.4.7
[15] rlang_0.4.10 multcomp_1.4-16 minqa_1.2.4 raster_3.4-5 nloptr_1.2.2.2 Matrix_1.3-2 rmarkdown_2.7
[22] splines_4.0.4 lme4_1.1-26 statmod_1.4.35 TMB_1.7.19 munsell_0.5.0 compiler_4.0.4 xfun_0.21
[29] pkgconfig_2.0.3 htmltools_0.5.1.1 tidyselect_1.1.0 tibble_3.0.6 quadprog_1.5-8 codetools_0.2-18 crayon_1.4.1
[36] dplyr_1.0.4 withr_2.4.1 MASS_7.3-53.1 grid_4.0.4 nlme_3.1-152 xtable_1.8-4 gtable_0.3.0
[43] lifecycle_1.0.0 DBI_1.1.1 scales_1.1.1 estimability_1.3 sp_1.4-5 ellipsis_0.3.1 vctrs_0.3.6
[50] generics_0.1.0 boot_1.3-27 sandwich_3.0-0 TH.data_1.0-10 iterators_1.0.13 tools_4.0.4 glue_1.4.2
[57] purrr_0.3.4 survival_3.2-7 yaml_2.2.1 colorspace_2.0-0 VGAM_1.1-5 knitr_1.31
```