23/04, 2023
The goal of AICcPermanova is to evaluate the best models for plant communities and bacterial communities in Denmark in order to do that we require the following packages
library(ampvis2)
library(readxl)
library(tidyverse)
library(AICcPermanova)After that we read in the datasets for environmental layers and generate all possible models to fit, in this case we will limit ourselves to only using at most one variable per ten observations, in this case that means up to 5 variables per model. The code for generating all possible models can be expanded bellow
Model generator
METADATAS <- list.files(pattern = "PERMANOVA_VEGETATION_", full.names = T) |>
purrr::map(read_excel) |>
purrr::reduce(full_join) |>
janitor::clean_names()
AllForms <- AICcPermanova::make_models(vars = c("p_h_water", "ec", "water_content", "wr", "ammonium", "nitrat_nitrit",
"oc_beregnet", "clay", "fine_silt", "coarse_silt_sand", "shannon_bak",
"finesilt_and_clay", "dexter_n")
, ncores = 21, k = floor(nrow(METADATAS)/10))
saveRDS(AllForms, "AllForms.rds")
openxlsx::write.xlsx(AllForms, "AllForms.xlsx")This generate up to 2,380 models to evaluate, which can be downloaded as an excel file here an rds here.
Now before the model fitting, we will filter out models with high degree of multicolinearity using VIF with 5 as a cut off
VIF filter
Filtered <- AICcPermanova::filter_vif(all_forms = AllForms , env_data = METADATAS, ncores = 21)This is then narrowed down to 1,351 models to evaluate
Then in the following code each model is fitted and AICc is calculated to order it
Model fitting code
vegetation_data = read_excel("Presence_absence_vegetation_AC_Danielsen.xlsx")%>%
janitor::clean_names()
vegetation_data_no_ID = subset(vegetation_data, select = -plot)
FS <- AICcPermanova::fit_models(all_forms = Filtered,
env_data = METADATAS,
veg_data = vegetation_data_no_ID,
ncores = 21,
method = "jaccard",
logfile = "new.txt",
strata = "area"
)
saveRDS(FS, "FS.rds")
openxlsx::write.xlsx(FS, "FS.xlsx")As seen in table 2.1 there are 190 models within 2 AICc where the max VIF is lower or equal than 6 of each other, you can see there how many times a variable has been selected
| Variable | Full_Akaike_Adjusted_RSq | Number_of_models |
|---|---|---|
| p_h_water | 0.050 | 125 |
| ec | 0.033 | 122 |
| water_content | 0.027 | 110 |
| fine_silt | 0.009 | 49 |
| oc_beregnet | 0.008 | 48 |
| wr | 0.006 | 47 |
| ammonium | 0.006 | 44 |
| shannon_bak | 0.010 | 42 |
| finesilt_and_clay | 0.006 | 35 |
| coarse_silt_sand | 0.005 | 32 |
| clay | 0.004 | 31 |
| nitrat_nitrit | 0.001 | 13 |
| dexter_n | 0.001 | 13 |
Table 2.1: Number of selected models were variables are present and their Akaike Weighted R squared for the Marginal effect of the terms
Now we can see the top models that have a delta AICc within 2 of the best model in table 2.2 if expanded
Show table of selected models for vegetation presence absence
| form | max_vif | AICc | k | N | p_h_water | ec | water_content | wr | ammonium | nitrat_nitrit | oc_beregnet | clay | fine_silt | coarse_silt_sand | shannon_bak | finesilt_and_clay | dexter_n | DeltaAICc | AICWeight |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Distance ~ p_h_water + ec + water_content | 2.269 | -52.326 | 4 | 52 | 0.056 | 0.045 | 0.048 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.000 | 0.010 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet | 3.146 | -52.069 | 5 | 52 | 0.050 | 0.040 | 0.058 | NA | NA | NA | 0.033 | NA | NA | NA | NA | NA | NA | 0.258 | 0.009 |
| Distance ~ p_h_water + ec + water_content + fine_silt | 2.583 | -52.058 | 5 | 52 | 0.056 | 0.043 | 0.038 | NA | NA | NA | NA | NA | 0.033 | NA | NA | NA | NA | 0.269 | 0.009 |
| Distance ~ ec + water_content + shannon_bak | 2.143 | -52.055 | 4 | 52 | NA | 0.060 | 0.056 | NA | NA | NA | NA | NA | NA | NA | 0.052 | NA | NA | 0.272 | 0.009 |
| Distance ~ p_h_water + fine_silt | 1.161 | -52.004 | 3 | 52 | 0.105 | NA | NA | NA | NA | NA | NA | NA | 0.043 | NA | NA | NA | NA | 0.322 | 0.009 |
| Distance ~ p_h_water + ec + fine_silt | 2.470 | -51.996 | 4 | 52 | 0.062 | 0.037 | NA | NA | NA | NA | NA | NA | 0.043 | NA | NA | NA | NA | 0.330 | 0.009 |
| Distance ~ p_h_water + ec + water_content + finesilt_and_clay | 2.564 | -51.984 | 5 | 52 | 0.056 | 0.043 | 0.041 | NA | NA | NA | NA | NA | NA | NA | NA | 0.032 | NA | 0.342 | 0.009 |
| Distance ~ p_h_water + water_content + oc_beregnet | 2.325 | -51.888 | 4 | 52 | 0.108 | NA | 0.056 | NA | NA | NA | 0.038 | NA | NA | NA | NA | NA | NA | 0.438 | 0.008 |
| Distance ~ p_h_water + water_content | 1.010 | -51.863 | 3 | 52 | 0.112 | NA | 0.041 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.464 | 0.008 |
| Distance ~ p_h_water + finesilt_and_clay | 1.140 | -51.784 | 3 | 52 | 0.106 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.039 | NA | 0.543 | 0.008 |
| Distance ~ p_h_water + ec + finesilt_and_clay | 2.405 | -51.741 | 4 | 52 | 0.062 | 0.037 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.039 | NA | 0.585 | 0.008 |
| Distance ~ p_h_water + water_content + oc_beregnet + fine_silt | 2.857 | -51.733 | 5 | 52 | 0.093 | NA | 0.048 | NA | NA | NA | 0.038 | NA | 0.035 | NA | NA | NA | NA | 0.594 | 0.008 |
| Distance ~ p_h_water + ec + water_content + clay | 2.462 | -51.717 | 5 | 52 | 0.056 | 0.043 | 0.045 | NA | NA | NA | NA | 0.028 | NA | NA | NA | NA | NA | 0.609 | 0.008 |
| Distance ~ p_h_water + ec + water_content + wr | 4.161 | -51.715 | 5 | 52 | 0.043 | 0.043 | 0.053 | 0.028 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.611 | 0.008 |
| Distance ~ ec + water_content + fine_silt + shannon_bak | 2.463 | -51.709 | 5 | 52 | NA | 0.057 | 0.044 | NA | NA | NA | NA | NA | 0.032 | NA | 0.051 | NA | NA | 0.617 | 0.008 |
| Distance ~ p_h_water + water_content + fine_silt | 1.706 | -51.702 | 4 | 52 | 0.089 | NA | 0.033 | NA | NA | NA | NA | NA | 0.035 | NA | NA | NA | NA | 0.624 | 0.008 |
| Distance ~ p_h_water | 0.000 | -51.678 | 2 | 52 | 0.115 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.648 | 0.007 |
| Distance ~ p_h_water + ec + water_content + coarse_silt_sand | 2.883 | -51.662 | 5 | 52 | 0.055 | 0.039 | 0.039 | NA | NA | NA | NA | NA | NA | 0.027 | NA | NA | NA | 0.665 | 0.007 |
| Distance ~ ec + water_content + shannon_bak + finesilt_and_clay | 2.420 | -51.649 | 5 | 52 | NA | 0.058 | 0.047 | NA | NA | NA | NA | NA | NA | NA | 0.051 | 0.031 | NA | 0.677 | 0.007 |
| Distance ~ p_h_water + ec | 1.841 | -51.634 | 3 | 52 | 0.063 | 0.037 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.692 | 0.007 |
| Distance ~ p_h_water + water_content + finesilt_and_clay | 1.542 | -51.615 | 4 | 52 | 0.093 | NA | 0.035 | NA | NA | NA | NA | NA | NA | NA | NA | 0.033 | NA | 0.711 | 0.007 |
| Distance ~ p_h_water + water_content + oc_beregnet + coarse_silt_sand | 2.588 | -51.581 | 5 | 52 | 0.096 | NA | 0.049 | NA | NA | NA | 0.038 | NA | NA | 0.033 | NA | NA | NA | 0.745 | 0.007 |
| Distance ~ p_h_water + water_content + oc_beregnet + finesilt_and_clay | 2.588 | -51.581 | 5 | 52 | 0.096 | NA | 0.049 | NA | NA | NA | 0.037 | NA | NA | NA | NA | 0.033 | NA | 0.745 | 0.007 |
| Distance ~ p_h_water + ec + coarse_silt_sand | 2.875 | -51.552 | 4 | 52 | 0.056 | 0.038 | NA | NA | NA | NA | NA | NA | NA | 0.036 | NA | NA | NA | 0.774 | 0.007 |
| Distance ~ p_h_water + ec + water_content + ammonium | 2.510 | -51.548 | 5 | 52 | 0.056 | 0.045 | 0.044 | NA | 0.025 | NA | NA | NA | NA | NA | NA | NA | NA | 0.778 | 0.007 |
| Distance ~ p_h_water + water_content + coarse_silt_sand | 1.885 | -51.540 | 4 | 52 | 0.099 | NA | 0.038 | NA | NA | NA | NA | NA | NA | 0.032 | NA | NA | NA | 0.787 | 0.007 |
| Distance ~ p_h_water + coarse_silt_sand | 1.030 | -51.528 | 3 | 52 | 0.112 | NA | NA | NA | NA | NA | NA | NA | NA | 0.035 | NA | NA | NA | 0.798 | 0.007 |
| Distance ~ p_h_water + ec + ammonium + fine_silt | 2.551 | -51.492 | 5 | 52 | 0.059 | 0.038 | NA | NA | 0.030 | NA | NA | NA | 0.043 | NA | NA | NA | NA | 0.834 | 0.007 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + fine_silt | 3.436 | -51.448 | 6 | 52 | 0.049 | 0.033 | 0.042 | NA | NA | NA | 0.028 | NA | 0.028 | NA | NA | NA | NA | 0.878 | 0.007 |
| Distance ~ p_h_water + ammonium + fine_silt | 1.277 | -51.442 | 4 | 52 | 0.098 | NA | NA | NA | 0.028 | NA | NA | NA | 0.043 | NA | NA | NA | NA | 0.885 | 0.007 |
| Distance ~ ec + water_content + coarse_silt_sand + shannon_bak | 2.650 | -51.417 | 5 | 52 | NA | 0.054 | 0.040 | NA | NA | NA | NA | NA | NA | 0.028 | 0.051 | NA | NA | 0.909 | 0.007 |
| Distance ~ ec + water_content + clay + shannon_bak | 2.301 | -51.417 | 5 | 52 | NA | 0.059 | 0.052 | NA | NA | NA | NA | 0.028 | NA | NA | 0.052 | NA | NA | 0.910 | 0.007 |
| Distance ~ ec + water_content + wr | 1.310 | -51.372 | 4 | 52 | NA | 0.073 | 0.058 | 0.041 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.954 | 0.006 |
| Distance ~ p_h_water + water_content + wr | 2.381 | -51.339 | 4 | 52 | 0.072 | NA | 0.050 | 0.029 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.987 | 0.006 |
| Distance ~ p_h_water + ec + water_content + wr + fine_silt | 4.336 | -51.334 | 6 | 52 | 0.041 | 0.039 | 0.045 | 0.027 | NA | NA | NA | NA | 0.032 | NA | NA | NA | NA | 0.992 | 0.006 |
| Distance ~ p_h_water + water_content + clay | 1.252 | -51.328 | 4 | 52 | 0.102 | NA | 0.038 | NA | NA | NA | NA | 0.029 | NA | NA | NA | NA | NA | 0.998 | 0.006 |
| Distance ~ ec + water_content + oc_beregnet + shannon_bak | 2.671 | -51.320 | 5 | 52 | NA | 0.056 | 0.050 | NA | NA | NA | 0.026 | NA | NA | NA | 0.039 | NA | NA | 1.006 | 0.006 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + coarse_silt_sand | 3.292 | -51.316 | 6 | 52 | 0.048 | 0.033 | 0.045 | NA | NA | NA | 0.032 | NA | NA | 0.026 | NA | NA | NA | 1.010 | 0.006 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + finesilt_and_clay | 3.292 | -51.316 | 6 | 52 | 0.048 | 0.033 | 0.045 | NA | NA | NA | 0.027 | NA | NA | NA | NA | 0.026 | NA | 1.010 | 0.006 |
| Distance ~ p_h_water + clay | 1.083 | -51.299 | 3 | 52 | 0.109 | NA | NA | NA | NA | NA | NA | 0.031 | NA | NA | NA | NA | NA | 1.028 | 0.006 |
| Distance ~ ec + fine_silt + shannon_bak | 2.463 | -51.281 | 4 | 52 | NA | 0.056 | NA | NA | NA | NA | NA | NA | 0.044 | NA | 0.051 | NA | NA | 1.045 | 0.006 |
| Distance ~ p_h_water + ec + ammonium + finesilt_and_clay | 2.491 | -51.273 | 5 | 52 | 0.059 | 0.038 | NA | NA | 0.030 | NA | NA | NA | NA | NA | NA | 0.040 | NA | 1.054 | 0.006 |
| Distance ~ p_h_water + ammonium + finesilt_and_clay | 1.249 | -51.271 | 4 | 52 | 0.100 | NA | NA | NA | 0.029 | NA | NA | NA | NA | NA | NA | 0.041 | NA | 1.055 | 0.006 |
| Distance ~ p_h_water + water_content + oc_beregnet + clay | 2.353 | -51.271 | 5 | 52 | 0.102 | NA | 0.051 | NA | NA | NA | 0.037 | 0.028 | NA | NA | NA | NA | NA | 1.055 | 0.006 |
| Distance ~ ec + coarse_silt_sand + shannon_bak | 2.606 | -51.241 | 4 | 52 | NA | 0.060 | NA | NA | NA | NA | NA | NA | NA | 0.043 | 0.051 | NA | NA | 1.085 | 0.006 |
| Distance ~ p_h_water + ec + water_content + wr + finesilt_and_clay | 4.294 | -51.233 | 6 | 52 | 0.041 | 0.040 | 0.047 | 0.026 | NA | NA | NA | NA | NA | NA | NA | 0.030 | NA | 1.093 | 0.006 |
| Distance ~ p_h_water + ec + water_content + dexter_n | 2.280 | -51.222 | 5 | 52 | 0.056 | 0.044 | 0.049 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.020 | 1.105 | 0.006 |
| Distance ~ ec + water_content + oc_beregnet | 1.944 | -51.221 | 4 | 52 | NA | 0.097 | 0.056 | NA | NA | NA | 0.039 | NA | NA | NA | NA | NA | NA | 1.105 | 0.006 |
| Distance ~ ec + water_content + ammonium + shannon_bak | 2.433 | -51.213 | 5 | 52 | NA | 0.061 | 0.046 | NA | 0.025 | NA | NA | NA | NA | NA | 0.051 | NA | NA | 1.114 | 0.006 |
| Distance ~ p_h_water + water_content + wr + fine_silt | 2.595 | -51.198 | 5 | 52 | 0.070 | NA | 0.044 | 0.030 | NA | NA | NA | NA | 0.035 | NA | NA | NA | NA | 1.128 | 0.006 |
| Distance ~ p_h_water + ec + clay | 2.180 | -51.198 | 4 | 52 | 0.062 | 0.036 | NA | NA | NA | NA | NA | 0.031 | NA | NA | NA | NA | NA | 1.129 | 0.006 |
| Distance ~ ec + water_content | 1.067 | -51.167 | 3 | 52 | NA | 0.101 | 0.055 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.159 | 0.006 |
| Distance ~ p_h_water + ec + ammonium | 2.092 | -51.146 | 4 | 52 | 0.059 | 0.039 | NA | NA | 0.030 | NA | NA | NA | NA | NA | NA | NA | NA | 1.181 | 0.006 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + clay | 3.182 | -51.140 | 6 | 52 | 0.049 | 0.036 | 0.051 | NA | NA | NA | 0.029 | 0.024 | NA | NA | NA | NA | NA | 1.186 | 0.006 |
| Distance ~ ec + water_content + wr + shannon_bak | 2.941 | -51.135 | 5 | 52 | NA | 0.061 | 0.056 | 0.023 | NA | NA | NA | NA | NA | NA | 0.034 | NA | NA | 1.191 | 0.006 |
| Distance ~ p_h_water + clay + fine_silt | 3.129 | -51.107 | 4 | 52 | 0.105 | NA | NA | NA | NA | NA | NA | 0.023 | 0.035 | NA | NA | NA | NA | 1.219 | 0.006 |
| Distance ~ p_h_water + ec + oc_beregnet + fine_silt | 3.277 | -51.104 | 5 | 52 | 0.048 | 0.039 | NA | NA | NA | NA | 0.024 | NA | 0.043 | NA | NA | NA | NA | 1.222 | 0.006 |
| Distance ~ p_h_water + ec + ammonium + coarse_silt_sand | 2.880 | -51.094 | 5 | 52 | 0.055 | 0.038 | NA | NA | 0.031 | NA | NA | NA | NA | 0.037 | NA | NA | NA | 1.232 | 0.006 |
| Distance ~ p_h_water + ammonium | 1.046 | -51.089 | 3 | 52 | 0.111 | NA | NA | NA | 0.028 | NA | NA | NA | NA | NA | NA | NA | NA | 1.237 | 0.006 |
| Distance ~ ec + water_content + wr + fine_silt | 2.237 | -51.088 | 5 | 52 | NA | 0.068 | 0.046 | 0.041 | NA | NA | NA | NA | 0.033 | NA | NA | NA | NA | 1.239 | 0.006 |
| Distance ~ p_h_water + water_content + ammonium | 2.295 | -51.077 | 4 | 52 | 0.112 | NA | 0.038 | NA | 0.025 | NA | NA | NA | NA | NA | NA | NA | NA | 1.249 | 0.006 |
| Distance ~ p_h_water + ammonium + coarse_silt_sand | 1.287 | -51.071 | 4 | 52 | 0.104 | NA | NA | NA | 0.030 | NA | NA | NA | NA | 0.038 | NA | NA | NA | 1.255 | 0.006 |
| Distance ~ p_h_water + water_content + wr + finesilt_and_clay | 2.515 | -51.067 | 5 | 52 | 0.070 | NA | 0.045 | 0.029 | NA | NA | NA | NA | NA | NA | NA | 0.034 | NA | 1.259 | 0.006 |
| Distance ~ p_h_water + ec + clay + fine_silt | 3.545 | -51.064 | 5 | 52 | 0.062 | 0.037 | NA | NA | NA | NA | NA | 0.023 | 0.036 | NA | NA | NA | NA | 1.262 | 0.005 |
| Distance ~ p_h_water + ec + water_content + wr + oc_beregnet | 4.304 | -51.056 | 6 | 52 | 0.044 | 0.040 | 0.052 | 0.023 | NA | NA | 0.028 | NA | NA | NA | NA | NA | NA | 1.270 | 0.005 |
| Distance ~ p_h_water + oc_beregnet + fine_silt | 1.491 | -51.049 | 4 | 52 | 0.093 | NA | NA | NA | NA | NA | 0.022 | NA | 0.043 | NA | NA | NA | NA | 1.277 | 0.005 |
| Distance ~ ec + shannon_bak + finesilt_and_clay | 2.414 | -51.045 | 4 | 52 | NA | 0.055 | NA | NA | NA | NA | NA | NA | NA | NA | 0.051 | 0.040 | NA | 1.281 | 0.005 |
| Distance ~ p_h_water + ec + water_content + nitrat_nitrit | 2.452 | -51.008 | 5 | 52 | 0.055 | 0.043 | 0.042 | NA | NA | 0.017 | NA | NA | NA | NA | NA | NA | NA | 1.318 | 0.005 |
| Distance ~ p_h_water + water_content + wr + coarse_silt_sand | 2.393 | -51.006 | 5 | 52 | 0.069 | NA | 0.045 | 0.029 | NA | NA | NA | NA | NA | 0.033 | NA | NA | NA | 1.320 | 0.005 |
| Distance ~ ec + water_content + wr + finesilt_and_clay | 1.912 | -50.993 | 5 | 52 | NA | 0.069 | 0.049 | 0.041 | NA | NA | NA | NA | NA | NA | NA | 0.032 | NA | 1.333 | 0.005 |
| Distance ~ p_h_water + ec + water_content + ammonium + oc_beregnet | 3.146 | -50.984 | 6 | 52 | 0.050 | 0.039 | 0.054 | NA | 0.021 | NA | 0.029 | NA | NA | NA | NA | NA | NA | 1.343 | 0.005 |
| Distance ~ p_h_water + ec + water_content + wr + clay | 4.223 | -50.979 | 6 | 52 | 0.042 | 0.041 | 0.051 | 0.027 | NA | NA | NA | 0.027 | NA | NA | NA | NA | NA | 1.347 | 0.005 |
| Distance ~ p_h_water + clay + coarse_silt_sand | 4.325 | -50.979 | 4 | 52 | 0.108 | NA | NA | NA | NA | NA | NA | 0.029 | NA | 0.033 | NA | NA | NA | 1.347 | 0.005 |
| Distance ~ p_h_water + ec + water_content + wr + coarse_silt_sand | 4.403 | -50.975 | 6 | 52 | 0.041 | 0.037 | 0.045 | 0.027 | NA | NA | NA | NA | NA | 0.027 | NA | NA | NA | 1.351 | 0.005 |
| Distance ~ p_h_water + ec + water_content + clay + fine_silt | 4.281 | -50.971 | 6 | 52 | 0.055 | 0.043 | 0.036 | NA | NA | NA | NA | 0.021 | 0.027 | NA | NA | NA | NA | 1.355 | 0.005 |
| Distance ~ ec + ammonium + fine_silt + shannon_bak | 2.469 | -50.957 | 5 | 52 | NA | 0.057 | NA | NA | 0.033 | NA | NA | NA | 0.042 | NA | 0.051 | NA | NA | 1.370 | 0.005 |
| Distance ~ ec + shannon_bak | 2.052 | -50.932 | 3 | 52 | NA | 0.052 | NA | NA | NA | NA | NA | NA | NA | NA | 0.052 | NA | NA | 1.394 | 0.005 |
| Distance ~ ec + water_content + shannon_bak + dexter_n | 2.175 | -50.921 | 5 | 52 | NA | 0.060 | 0.056 | NA | NA | NA | NA | NA | NA | NA | 0.052 | NA | 0.020 | 1.405 | 0.005 |
| Distance ~ p_h_water + nitrat_nitrit | 1.157 | -50.899 | 3 | 52 | 0.102 | NA | NA | NA | NA | 0.025 | NA | NA | NA | NA | NA | NA | NA | 1.427 | 0.005 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet | 3.225 | -50.888 | 5 | 52 | 0.072 | NA | 0.050 | 0.022 | NA | NA | 0.031 | NA | NA | NA | NA | NA | NA | 1.439 | 0.005 |
| Distance ~ ec + clay + coarse_silt_sand + shannon_bak | 4.817 | -50.877 | 5 | 52 | NA | 0.063 | NA | NA | NA | NA | NA | 0.032 | NA | 0.044 | 0.050 | NA | NA | 1.449 | 0.005 |
| Distance ~ p_h_water + water_content + ammonium + oc_beregnet | 2.874 | -50.869 | 5 | 52 | 0.109 | NA | 0.053 | NA | 0.022 | NA | 0.035 | NA | NA | NA | NA | NA | NA | 1.458 | 0.005 |
| Distance ~ p_h_water + oc_beregnet + coarse_silt_sand | 1.685 | -50.867 | 4 | 52 | 0.094 | NA | NA | NA | NA | NA | 0.027 | NA | NA | 0.040 | NA | NA | NA | 1.460 | 0.005 |
| Distance ~ p_h_water + oc_beregnet + finesilt_and_clay | 1.453 | -50.867 | 4 | 52 | 0.094 | NA | NA | NA | NA | NA | 0.023 | NA | NA | NA | NA | 0.040 | NA | 1.460 | 0.005 |
| Distance ~ p_h_water + ec + water_content + ammonium + finesilt_and_clay | 2.941 | -50.857 | 6 | 52 | 0.057 | 0.043 | 0.032 | NA | 0.021 | NA | NA | NA | NA | NA | NA | 0.027 | NA | 1.469 | 0.005 |
| Distance ~ ec + water_content + fine_silt | 1.908 | -50.855 | 4 | 52 | NA | 0.076 | 0.044 | NA | NA | NA | NA | NA | 0.033 | NA | NA | NA | NA | 1.471 | 0.005 |
| Distance ~ ec + ammonium + coarse_silt_sand + shannon_bak | 2.619 | -50.855 | 5 | 52 | NA | 0.059 | NA | NA | 0.032 | NA | NA | NA | NA | 0.040 | 0.052 | NA | NA | 1.471 | 0.005 |
| Distance ~ p_h_water + ec + oc_beregnet + coarse_silt_sand | 3.215 | -50.830 | 5 | 52 | 0.048 | 0.037 | NA | NA | NA | NA | 0.027 | NA | NA | 0.039 | NA | NA | NA | 1.497 | 0.005 |
| Distance ~ p_h_water + ec + oc_beregnet + finesilt_and_clay | 3.215 | -50.830 | 5 | 52 | 0.048 | 0.037 | NA | NA | NA | NA | 0.024 | NA | NA | NA | NA | 0.039 | NA | 1.497 | 0.005 |
| Distance ~ p_h_water + ec + wr + fine_silt | 4.327 | -50.827 | 5 | 52 | 0.042 | 0.038 | NA | 0.020 | NA | NA | NA | NA | 0.039 | NA | NA | NA | NA | 1.499 | 0.005 |
| Distance ~ ec + oc_beregnet + fine_silt + shannon_bak | 2.695 | -50.825 | 5 | 52 | NA | 0.063 | NA | NA | NA | NA | 0.031 | NA | 0.043 | NA | 0.044 | NA | NA | 1.501 | 0.005 |
| Distance ~ ec + water_content + wr + fine_silt + shannon_bak | 2.968 | -50.816 | 6 | 52 | NA | 0.058 | 0.044 | 0.024 | NA | NA | NA | NA | 0.033 | NA | 0.034 | NA | NA | 1.510 | 0.005 |
| Distance ~ p_h_water + ec + water_content + ammonium + clay | 2.618 | -50.810 | 6 | 52 | 0.056 | 0.044 | 0.039 | NA | 0.024 | NA | NA | 0.027 | NA | NA | NA | NA | NA | 1.517 | 0.005 |
| Distance ~ p_h_water + ec + water_content + ammonium + fine_silt | 3.233 | -50.808 | 6 | 52 | 0.056 | 0.042 | 0.028 | NA | 0.019 | NA | NA | NA | 0.027 | NA | NA | NA | NA | 1.519 | 0.005 |
| Distance ~ p_h_water + ammonium + clay | 1.166 | -50.806 | 4 | 52 | 0.104 | NA | NA | NA | 0.030 | NA | NA | 0.033 | NA | NA | NA | NA | NA | 1.521 | 0.005 |
| Distance ~ p_h_water + wr + fine_silt | 2.324 | -50.797 | 4 | 52 | 0.070 | NA | NA | 0.018 | NA | NA | NA | NA | 0.041 | NA | NA | NA | NA | 1.529 | 0.005 |
| Distance ~ p_h_water + water_content + dexter_n | 1.041 | -50.790 | 4 | 52 | 0.112 | NA | 0.042 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.021 | 1.536 | 0.005 |
| Distance ~ ec + water_content + finesilt_and_clay | 1.726 | -50.777 | 4 | 52 | NA | 0.080 | 0.047 | NA | NA | NA | NA | NA | NA | NA | NA | 0.032 | NA | 1.550 | 0.005 |
| Distance ~ ec + ammonium + shannon_bak + finesilt_and_clay | 2.422 | -50.765 | 5 | 52 | NA | 0.057 | NA | NA | 0.034 | NA | NA | NA | NA | NA | 0.051 | 0.039 | NA | 1.561 | 0.005 |
| Distance ~ p_h_water + ec + oc_beregnet | 3.120 | -50.763 | 4 | 52 | 0.049 | 0.039 | NA | NA | NA | NA | 0.024 | NA | NA | NA | NA | NA | NA | 1.563 | 0.005 |
| Distance ~ ec + water_content + wr + coarse_silt_sand | 2.367 | -50.757 | 5 | 52 | NA | 0.065 | 0.045 | 0.041 | NA | NA | NA | NA | NA | 0.028 | NA | NA | NA | 1.570 | 0.005 |
| Distance ~ p_h_water + water_content + wr + clay | 2.420 | -50.748 | 5 | 52 | 0.071 | NA | 0.048 | 0.029 | NA | NA | NA | 0.029 | NA | NA | NA | NA | NA | 1.578 | 0.005 |
| Distance ~ p_h_water + ec + wr | 4.030 | -50.747 | 4 | 52 | 0.048 | 0.041 | NA | 0.024 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.579 | 0.005 |
| Distance ~ p_h_water + ec + ammonium + clay | 2.292 | -50.745 | 5 | 52 | 0.059 | 0.037 | NA | NA | 0.031 | NA | NA | 0.032 | NA | NA | NA | NA | NA | 1.581 | 0.005 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + fine_silt | 3.349 | -50.744 | 6 | 52 | 0.068 | NA | 0.047 | 0.023 | NA | NA | 0.031 | NA | 0.036 | NA | NA | NA | NA | 1.582 | 0.005 |
| Distance ~ p_h_water + ec + water_content + wr + ammonium | 4.187 | -50.742 | 6 | 52 | 0.042 | 0.043 | 0.042 | 0.026 | 0.023 | NA | NA | NA | NA | NA | NA | NA | NA | 1.584 | 0.005 |
| Distance ~ p_h_water + water_content + oc_beregnet + clay + fine_silt | 4.362 | -50.740 | 6 | 52 | 0.092 | NA | 0.048 | NA | NA | NA | 0.039 | 0.023 | 0.030 | NA | NA | NA | NA | 1.587 | 0.005 |
| Distance ~ p_h_water + oc_beregnet | 1.211 | -50.734 | 3 | 52 | 0.103 | NA | NA | NA | NA | NA | 0.022 | NA | NA | NA | NA | NA | NA | 1.592 | 0.005 |
| Distance ~ p_h_water + fine_silt + dexter_n | 1.219 | -50.729 | 4 | 52 | 0.105 | NA | NA | NA | NA | NA | NA | NA | 0.041 | NA | NA | NA | 0.017 | 1.597 | 0.005 |
| Distance ~ ec + water_content + oc_beregnet + fine_silt + shannon_bak | 3.225 | -50.729 | 6 | 52 | NA | 0.049 | 0.036 | NA | NA | NA | 0.023 | NA | 0.029 | NA | 0.039 | NA | NA | 1.597 | 0.005 |
| Distance ~ ec + water_content + nitrat_nitrit + shannon_bak | 2.343 | -50.728 | 5 | 52 | NA | 0.056 | 0.050 | NA | NA | 0.017 | NA | NA | NA | NA | 0.051 | NA | NA | 1.599 | 0.005 |
| Distance ~ ec + water_content + wr + shannon_bak + finesilt_and_clay | 2.953 | -50.724 | 6 | 52 | NA | 0.058 | 0.047 | 0.024 | NA | NA | NA | NA | NA | NA | 0.034 | 0.032 | NA | 1.602 | 0.005 |
| Distance ~ ec + water_content + wr + clay | 1.469 | -50.721 | 5 | 52 | NA | 0.071 | 0.054 | 0.041 | NA | NA | NA | 0.028 | NA | NA | NA | NA | NA | 1.605 | 0.005 |
| Distance ~ p_h_water + ec + nitrat_nitrit | 2.212 | -50.714 | 4 | 52 | 0.063 | 0.035 | NA | NA | NA | 0.023 | NA | NA | NA | NA | NA | NA | NA | 1.612 | 0.005 |
| Distance ~ ec + ammonium + shannon_bak | 2.092 | -50.695 | 4 | 52 | NA | 0.055 | NA | NA | 0.034 | NA | NA | NA | NA | NA | 0.052 | NA | NA | 1.631 | 0.005 |
| Distance ~ p_h_water + water_content + nitrat_nitrit | 1.424 | -50.691 | 4 | 52 | 0.090 | NA | 0.035 | NA | NA | 0.019 | NA | NA | NA | NA | NA | NA | NA | 1.635 | 0.005 |
| Distance ~ p_h_water + water_content + nitrat_nitrit + oc_beregnet | 2.339 | -50.689 | 5 | 52 | 0.091 | NA | 0.052 | NA | NA | 0.019 | 0.038 | NA | NA | NA | NA | NA | NA | 1.637 | 0.005 |
| Distance ~ ec + water_content + oc_beregnet + fine_silt | 2.921 | -50.685 | 5 | 52 | NA | 0.077 | 0.042 | NA | NA | NA | 0.035 | NA | 0.030 | NA | NA | NA | NA | 1.641 | 0.005 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + dexter_n | 3.146 | -50.672 | 6 | 52 | 0.050 | 0.040 | 0.057 | NA | NA | NA | 0.030 | NA | NA | NA | NA | NA | 0.017 | 1.654 | 0.005 |
| Distance ~ p_h_water + ec + water_content + ammonium + coarse_silt_sand | 3.356 | -50.657 | 6 | 52 | 0.055 | 0.039 | 0.031 | NA | 0.023 | NA | NA | NA | NA | 0.025 | NA | NA | NA | 1.669 | 0.004 |
| Distance ~ p_h_water + ec + water_content + nitrat_nitrit + oc_beregnet | 3.146 | -50.651 | 6 | 52 | 0.050 | 0.037 | 0.051 | NA | NA | 0.017 | 0.033 | NA | NA | NA | NA | NA | NA | 1.675 | 0.004 |
| Distance ~ water_content + shannon_bak | 1.023 | -50.647 | 3 | 52 | NA | NA | 0.047 | NA | NA | NA | NA | NA | NA | NA | 0.092 | NA | NA | 1.679 | 0.004 |
| Distance ~ p_h_water + ec + fine_silt + dexter_n | 2.668 | -50.644 | 5 | 52 | 0.061 | 0.037 | NA | NA | NA | NA | NA | NA | 0.040 | NA | NA | NA | 0.017 | 1.683 | 0.004 |
| Distance ~ p_h_water + water_content + clay + fine_silt | 4.079 | -50.642 | 5 | 52 | 0.088 | NA | 0.031 | NA | NA | NA | NA | 0.021 | 0.027 | NA | NA | NA | NA | 1.684 | 0.004 |
| Distance ~ ec + water_content + clay + fine_silt + shannon_bak | 4.230 | -50.642 | 6 | 52 | NA | 0.057 | 0.043 | NA | NA | NA | NA | 0.022 | 0.026 | NA | 0.051 | NA | NA | 1.684 | 0.004 |
| Distance ~ ec + water_content + oc_beregnet + coarse_silt_sand + shannon_bak | 2.860 | -50.627 | 6 | 52 | NA | 0.050 | 0.038 | NA | NA | NA | 0.026 | NA | NA | 0.027 | 0.039 | NA | NA | 1.699 | 0.004 |
| Distance ~ ec + water_content + oc_beregnet + shannon_bak + finesilt_and_clay | 2.860 | -50.627 | 6 | 52 | NA | 0.050 | 0.038 | NA | NA | NA | 0.023 | NA | NA | NA | 0.039 | 0.027 | NA | 1.699 | 0.004 |
| Distance ~ ec + water_content + wr + oc_beregnet | 3.326 | -50.618 | 5 | 52 | NA | 0.068 | 0.052 | 0.029 | NA | NA | 0.026 | NA | NA | NA | NA | NA | NA | 1.708 | 0.004 |
| Distance ~ p_h_water + nitrat_nitrit + fine_silt | 1.645 | -50.599 | 4 | 52 | 0.101 | NA | NA | NA | NA | 0.015 | NA | NA | 0.033 | NA | NA | NA | NA | 1.727 | 0.004 |
| Distance ~ ec + oc_beregnet + coarse_silt_sand + shannon_bak | 2.649 | -50.597 | 5 | 52 | NA | 0.062 | NA | NA | NA | NA | 0.028 | NA | NA | 0.039 | 0.044 | NA | NA | 1.729 | 0.004 |
| Distance ~ ec + oc_beregnet + shannon_bak + finesilt_and_clay | 2.649 | -50.597 | 5 | 52 | NA | 0.062 | NA | NA | NA | NA | 0.031 | NA | NA | NA | 0.044 | 0.039 | NA | 1.729 | 0.004 |
| Distance ~ p_h_water + wr | 2.230 | -50.596 | 3 | 52 | 0.068 | NA | NA | 0.020 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.731 | 0.004 |
| Distance ~ p_h_water + wr + finesilt_and_clay | 2.323 | -50.595 | 4 | 52 | 0.070 | NA | NA | 0.019 | NA | NA | NA | NA | NA | NA | NA | 0.038 | NA | 1.731 | 0.004 |
| Distance ~ p_h_water + ec + wr + finesilt_and_clay | 4.266 | -50.589 | 5 | 52 | 0.043 | 0.038 | NA | 0.020 | NA | NA | NA | NA | NA | NA | NA | 0.036 | NA | 1.737 | 0.004 |
| Distance ~ ec + water_content + oc_beregnet + coarse_silt_sand | 2.593 | -50.583 | 5 | 52 | NA | 0.081 | 0.044 | NA | NA | NA | 0.039 | NA | NA | 0.028 | NA | NA | NA | 1.743 | 0.004 |
| Distance ~ ec + water_content + oc_beregnet + finesilt_and_clay | 2.593 | -50.583 | 5 | 52 | NA | 0.081 | 0.044 | NA | NA | NA | 0.035 | NA | NA | NA | NA | 0.028 | NA | 1.743 | 0.004 |
| Distance ~ p_h_water + dexter_n | 1.023 | -50.581 | 3 | 52 | 0.114 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.019 | 1.745 | 0.004 |
| Distance ~ p_h_water + water_content + ammonium + coarse_silt_sand | 3.352 | -50.578 | 5 | 52 | 0.101 | NA | 0.030 | NA | 0.023 | NA | NA | NA | NA | 0.030 | NA | NA | NA | 1.748 | 0.004 |
| Distance ~ p_h_water + ec + wr + ammonium + fine_silt | 4.327 | -50.577 | 6 | 52 | 0.042 | 0.038 | NA | 0.024 | 0.034 | NA | NA | NA | 0.039 | NA | NA | NA | NA | 1.749 | 0.004 |
| Distance ~ ec + wr + fine_silt | 1.615 | -50.577 | 4 | 52 | NA | 0.066 | NA | 0.040 | NA | NA | NA | NA | 0.045 | NA | NA | NA | NA | 1.750 | 0.004 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + coarse_silt_sand | 3.302 | -50.575 | 6 | 52 | 0.069 | NA | 0.046 | 0.023 | NA | NA | 0.031 | NA | NA | 0.033 | NA | NA | NA | 1.751 | 0.004 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + finesilt_and_clay | 3.302 | -50.575 | 6 | 52 | 0.069 | NA | 0.046 | 0.023 | NA | NA | 0.031 | NA | NA | NA | NA | 0.033 | NA | 1.751 | 0.004 |
| Distance ~ p_h_water + wr + coarse_silt_sand | 2.326 | -50.556 | 4 | 52 | 0.070 | NA | NA | 0.022 | NA | NA | NA | NA | NA | 0.038 | NA | NA | NA | 1.770 | 0.004 |
| Distance ~ p_h_water + ec + nitrat_nitrit + fine_silt | 2.560 | -50.555 | 5 | 52 | 0.062 | 0.037 | NA | NA | NA | 0.016 | NA | NA | 0.036 | NA | NA | NA | NA | 1.771 | 0.004 |
| Distance ~ p_h_water + water_content + oc_beregnet + dexter_n | 2.476 | -50.554 | 5 | 52 | 0.108 | NA | 0.055 | NA | NA | NA | 0.034 | NA | NA | NA | NA | NA | 0.017 | 1.772 | 0.004 |
| Distance ~ p_h_water + wr + ammonium + fine_silt | 2.573 | -50.546 | 5 | 52 | 0.070 | NA | NA | 0.024 | 0.034 | NA | NA | NA | 0.041 | NA | NA | NA | NA | 1.780 | 0.004 |
| Distance ~ ec + water_content + coarse_silt_sand | 2.358 | -50.539 | 4 | 52 | NA | 0.083 | 0.040 | NA | NA | NA | NA | NA | NA | 0.028 | NA | NA | NA | 1.787 | 0.004 |
| Distance ~ p_h_water + nitrat_nitrit + finesilt_and_clay | 1.461 | -50.538 | 4 | 52 | 0.101 | NA | NA | NA | NA | 0.018 | NA | NA | NA | NA | NA | 0.032 | NA | 1.788 | 0.004 |
| Distance ~ p_h_water + water_content + ammonium + fine_silt | 3.188 | -50.532 | 5 | 52 | 0.091 | NA | 0.024 | NA | 0.020 | NA | NA | NA | 0.030 | NA | NA | NA | NA | 1.794 | 0.004 |
| Distance ~ ec + water_content + clay | 1.357 | -50.530 | 4 | 52 | NA | 0.089 | 0.052 | NA | NA | NA | NA | 0.028 | NA | NA | NA | NA | NA | 1.796 | 0.004 |
| Distance ~ p_h_water + water_content + ammonium + finesilt_and_clay | 2.857 | -50.530 | 5 | 52 | 0.095 | NA | 0.026 | NA | 0.021 | NA | NA | NA | NA | NA | NA | 0.030 | NA | 1.796 | 0.004 |
| Distance ~ p_h_water + ec + ammonium + clay + fine_silt | 3.578 | -50.529 | 6 | 52 | 0.059 | 0.038 | NA | NA | 0.030 | NA | NA | 0.023 | 0.035 | NA | NA | NA | NA | 1.798 | 0.004 |
| Distance ~ ec + oc_beregnet + shannon_bak | 2.406 | -50.528 | 4 | 52 | NA | 0.059 | NA | NA | NA | NA | 0.032 | NA | NA | NA | 0.045 | NA | NA | 1.798 | 0.004 |
| Distance ~ p_h_water + ec + dexter_n | 1.910 | -50.524 | 4 | 52 | 0.063 | 0.037 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.020 | 1.802 | 0.004 |
| Distance ~ p_h_water + ec + wr + coarse_silt_sand | 4.403 | -50.520 | 5 | 52 | 0.041 | 0.038 | NA | 0.022 | NA | NA | NA | NA | NA | 0.035 | NA | NA | NA | 1.806 | 0.004 |
| Distance ~ p_h_water + ec + water_content + nitrat_nitrit + finesilt_and_clay | 2.660 | -50.513 | 6 | 52 | 0.055 | 0.042 | 0.039 | NA | NA | 0.016 | NA | NA | NA | NA | NA | 0.031 | NA | 1.813 | 0.004 |
| Distance ~ ec + clay + shannon_bak | 2.263 | -50.512 | 4 | 52 | NA | 0.053 | NA | NA | NA | NA | NA | 0.031 | NA | NA | 0.052 | NA | NA | 1.814 | 0.004 |
| Distance ~ p_h_water + ammonium + clay + fine_silt | 3.215 | -50.509 | 5 | 52 | 0.098 | NA | NA | NA | 0.029 | NA | NA | 0.023 | 0.033 | NA | NA | NA | NA | 1.818 | 0.004 |
| Distance ~ p_h_water + ec + water_content + nitrat_nitrit + fine_silt | 2.647 | -50.498 | 6 | 52 | 0.055 | 0.042 | 0.037 | NA | NA | 0.015 | NA | NA | 0.030 | NA | NA | NA | NA | 1.828 | 0.004 |
| Distance ~ ec + water_content + wr + ammonium | 2.437 | -50.488 | 5 | 52 | NA | 0.074 | 0.047 | 0.040 | 0.024 | NA | NA | NA | NA | NA | NA | NA | NA | 1.838 | 0.004 |
| Distance ~ ec + water_content + ammonium + shannon_bak + finesilt_and_clay | 2.818 | -50.481 | 6 | 52 | NA | 0.057 | 0.034 | NA | 0.020 | NA | NA | NA | NA | NA | 0.051 | 0.027 | NA | 1.845 | 0.004 |
| Distance ~ p_h_water + ec + wr + ammonium | 4.050 | -50.481 | 5 | 52 | 0.047 | 0.040 | NA | 0.028 | 0.034 | NA | NA | NA | NA | NA | NA | NA | NA | 1.846 | 0.004 |
| Distance ~ ec + fine_silt | 1.554 | -50.476 | 3 | 52 | NA | 0.080 | NA | NA | NA | NA | NA | NA | 0.044 | NA | NA | NA | NA | 1.851 | 0.004 |
| Distance ~ p_h_water + ec + nitrat_nitrit + finesilt_and_clay | 2.556 | -50.468 | 5 | 52 | 0.062 | 0.037 | NA | NA | NA | 0.018 | NA | NA | NA | NA | NA | 0.034 | NA | 1.859 | 0.004 |
| Distance ~ water_content + fine_silt + shannon_bak | 1.691 | -50.467 | 4 | 52 | NA | NA | 0.043 | NA | NA | NA | NA | NA | 0.035 | NA | 0.070 | NA | NA | 1.859 | 0.004 |
| Distance ~ p_h_water + ec + water_content + fine_silt + dexter_n | 2.717 | -50.462 | 6 | 52 | 0.056 | 0.041 | 0.035 | NA | NA | NA | NA | NA | 0.027 | NA | NA | NA | 0.014 | 1.864 | 0.004 |
| Distance ~ ec + water_content + oc_beregnet + clay + shannon_bak | 2.673 | -50.459 | 6 | 52 | NA | 0.053 | 0.044 | NA | NA | NA | 0.024 | 0.025 | NA | NA | 0.039 | NA | NA | 1.867 | 0.004 |
| Distance ~ ec + water_content + ammonium + clay + shannon_bak | 2.530 | -50.457 | 6 | 52 | NA | 0.059 | 0.041 | NA | 0.024 | NA | NA | 0.027 | NA | NA | 0.051 | NA | NA | 1.869 | 0.004 |
| Distance ~ p_h_water + finesilt_and_clay + dexter_n | 1.261 | -50.455 | 4 | 52 | 0.106 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.036 | 0.016 | 1.871 | 0.004 |
| Distance ~ ec + water_content + wr + coarse_silt_sand + shannon_bak | 2.985 | -50.451 | 6 | 52 | NA | 0.055 | 0.042 | 0.023 | NA | NA | NA | NA | NA | 0.028 | 0.033 | NA | NA | 1.875 | 0.004 |
| Distance ~ ec + water_content + wr + clay + shannon_bak | 2.942 | -50.451 | 6 | 52 | NA | 0.060 | 0.052 | 0.023 | NA | NA | NA | 0.028 | NA | NA | 0.034 | NA | NA | 1.875 | 0.004 |
| Distance ~ ec + oc_beregnet + fine_silt | 1.560 | -50.442 | 4 | 52 | NA | 0.083 | NA | NA | NA | NA | 0.038 | NA | 0.044 | NA | NA | NA | NA | 1.884 | 0.004 |
| Distance ~ ec + wr + fine_silt + shannon_bak | 2.839 | -50.429 | 5 | 52 | NA | 0.061 | NA | 0.025 | NA | NA | NA | NA | 0.045 | NA | 0.036 | NA | NA | 1.897 | 0.004 |
| Distance ~ ec + water_content + ammonium + fine_silt + shannon_bak | 3.077 | -50.426 | 6 | 52 | NA | 0.056 | 0.030 | NA | 0.019 | NA | NA | NA | 0.026 | NA | 0.051 | NA | NA | 1.900 | 0.004 |
| Distance ~ p_h_water + ec + water_content + wr + dexter_n | 4.166 | -50.424 | 6 | 52 | 0.042 | 0.043 | 0.052 | 0.026 | NA | NA | NA | NA | NA | NA | NA | NA | 0.019 | 1.902 | 0.004 |
| Distance ~ ec + coarse_silt_sand | 1.437 | -50.417 | 3 | 52 | NA | 0.093 | NA | NA | NA | NA | NA | NA | NA | 0.043 | NA | NA | NA | 1.909 | 0.004 |
| Distance ~ p_h_water + water_content + ammonium + clay | 2.434 | -50.411 | 5 | 52 | 0.103 | NA | 0.032 | NA | 0.024 | NA | NA | 0.028 | NA | NA | NA | NA | NA | 1.915 | 0.004 |
| Distance ~ p_h_water + water_content + ammonium + oc_beregnet + fine_silt | 4.299 | -50.407 | 6 | 52 | 0.093 | NA | 0.041 | NA | 0.018 | NA | 0.036 | NA | 0.031 | NA | NA | NA | NA | 1.919 | 0.004 |
| Distance ~ ec + water_content + oc_beregnet + clay | 2.166 | -50.403 | 5 | 52 | NA | 0.089 | 0.050 | NA | NA | NA | 0.036 | 0.025 | NA | NA | NA | NA | NA | 1.923 | 0.004 |
| Distance ~ p_h_water + wr + ammonium + finesilt_and_clay | 2.546 | -50.398 | 5 | 52 | 0.070 | NA | NA | 0.024 | 0.035 | NA | NA | NA | NA | NA | NA | 0.039 | NA | 1.928 | 0.004 |
| Distance ~ p_h_water + oc_beregnet + clay | 1.353 | -50.396 | 4 | 52 | 0.098 | NA | NA | NA | NA | NA | 0.023 | 0.033 | NA | NA | NA | NA | NA | 1.930 | 0.004 |
| Distance ~ p_h_water + ec + wr + ammonium + finesilt_and_clay | 4.267 | -50.387 | 6 | 52 | 0.043 | 0.038 | NA | 0.025 | 0.035 | NA | NA | NA | NA | NA | NA | 0.037 | NA | 1.939 | 0.004 |
| Distance ~ p_h_water + water_content + wr + ammonium | 2.480 | -50.372 | 5 | 52 | 0.072 | NA | 0.039 | 0.027 | 0.023 | NA | NA | NA | NA | NA | NA | NA | NA | 1.954 | 0.004 |
| Distance ~ ec + water_content + ammonium | 2.417 | -50.358 | 4 | 52 | NA | 0.100 | 0.046 | NA | 0.025 | NA | NA | NA | NA | NA | NA | NA | NA | 1.968 | 0.004 |
| Distance ~ water_content + shannon_bak + finesilt_and_clay | 1.550 | -50.357 | 4 | 52 | NA | NA | 0.044 | NA | NA | NA | NA | NA | NA | NA | 0.073 | 0.034 | NA | 1.969 | 0.004 |
| Distance ~ water_content + coarse_silt_sand + shannon_bak | 1.916 | -50.353 | 4 | 52 | NA | NA | 0.046 | NA | NA | NA | NA | NA | NA | 0.034 | 0.080 | NA | NA | 1.974 | 0.004 |
| Distance ~ ec + water_content + ammonium + coarse_silt_sand + shannon_bak | 3.368 | -50.348 | 6 | 52 | NA | 0.054 | 0.030 | NA | 0.022 | NA | NA | NA | NA | 0.025 | 0.051 | NA | NA | 1.978 | 0.004 |
| Distance ~ ec + wr + coarse_silt_sand | 1.682 | -50.346 | 4 | 52 | NA | 0.066 | NA | 0.037 | NA | NA | NA | NA | NA | 0.042 | NA | NA | NA | 1.981 | 0.004 |
| Distance ~ p_h_water + wr + ammonium | 2.477 | -50.344 | 4 | 52 | 0.070 | NA | NA | 0.026 | 0.034 | NA | NA | NA | NA | NA | NA | NA | NA | 1.983 | 0.004 |
| Distance ~ p_h_water + ec + finesilt_and_clay + dexter_n | 2.689 | -50.332 | 5 | 52 | 0.060 | 0.036 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.035 | 0.016 | 1.994 | 0.004 |
Table 2.2: Best models for vegetation presence absence
Since the environmental variables are the same, we don´t need to do any of the filtering or model generation again, only the model fitting, based on the filtered data.frame
Then in the following code each model is fitted and AICc is calculated to order it
Model fitting code for vegetation abundance
vegetation_data = read_excel("Pinpoint-data til ordination_minus_Lønstrup.xlsx")%>%
janitor::clean_names()
# Remocing the first column (ID) in vegetation-dataset and cheking there are no NAs
vegetation_data_no_ID = vegetation_data
Fs <- AICcPermanova::fit_models(all_forms = Filtered,
env_data = METADATAS,
veg_data = vegetation_data_no_ID,
ncores = 21,
method = "bray",
logfile = "PlantAbund.txt",
strata = "area"
)
saveRDS(Fs, "FSVegAbund.rds")
Fs <- Fs %>% arrange(AICc)
saveRDS(Fs, "FSVegAbund.rds")
openxlsx::write.xlsx(Fs, "FSVegAbund.xlsx")As seen in table 2.3 there are 70 models within 2 AICc of each other, you can see there how many times a variable has been selected
| Variable | Full_Akaike_Adjusted_RSq | Number_of_models |
|---|---|---|
| p_h_water | 0.082 | 55 |
| water_content | 0.037 | 48 |
| ec | 0.025 | 39 |
| oc_beregnet | 0.013 | 26 |
| ammonium | 0.011 | 25 |
| fine_silt | 0.005 | 14 |
| shannon_bak | 0.008 | 13 |
| wr | 0.004 | 11 |
| coarse_silt_sand | 0.003 | 8 |
| finesilt_and_clay | 0.002 | 6 |
| nitrat_nitrit | 0.002 | 6 |
| clay | 0.001 | 4 |
| dexter_n | 0.000 | 2 |
Table 2.3: Number of selected models were variables are present and their Akaike Weighted R squared for the Marginal effect of the terms
Now we can see the top models that have a delta AICc within 2 of the best model in table 2.4 if expanded
Show table of selected models for vegetation presence absence
| form | max_vif | AICc | k | N | p_h_water | ec | water_content | wr | ammonium | nitrat_nitrit | oc_beregnet | clay | fine_silt | coarse_silt_sand | shannon_bak | finesilt_and_clay | dexter_n | DeltaAICc | AICWeight |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Distance ~ p_h_water + water_content | 1.010 | -59.241 | 3 | 52 | 0.158 | NA | 0.069 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.000 | 0.029 |
| Distance ~ p_h_water + ec + water_content | 2.269 | -59.038 | 4 | 52 | 0.062 | 0.031 | 0.060 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.204 | 0.026 |
| Distance ~ p_h_water + water_content + ammonium | 2.295 | -58.885 | 4 | 52 | 0.161 | NA | 0.049 | NA | 0.029 | NA | NA | NA | NA | NA | NA | NA | NA | 0.356 | 0.024 |
| Distance ~ p_h_water + water_content + fine_silt | 1.706 | -58.739 | 4 | 52 | 0.127 | NA | 0.057 | NA | NA | NA | NA | NA | 0.027 | NA | NA | NA | NA | 0.503 | 0.022 |
| Distance ~ p_h_water + ec + water_content + wr | 4.161 | -58.731 | 5 | 52 | 0.056 | 0.040 | 0.056 | 0.030 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.511 | 0.022 |
| Distance ~ p_h_water + ec + water_content + ammonium | 2.510 | -58.651 | 5 | 52 | 0.065 | 0.031 | 0.045 | NA | 0.029 | NA | NA | NA | NA | NA | NA | NA | NA | 0.591 | 0.021 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet | 3.146 | -58.581 | 5 | 52 | 0.049 | 0.039 | 0.043 | NA | NA | NA | 0.028 | NA | NA | NA | NA | NA | NA | 0.660 | 0.020 |
| Distance ~ p_h_water + water_content + nitrat_nitrit | 1.424 | -58.433 | 4 | 52 | 0.128 | NA | 0.066 | NA | NA | 0.022 | NA | NA | NA | NA | NA | NA | NA | 0.808 | 0.019 |
| Distance ~ ec + water_content + oc_beregnet + shannon_bak | 2.671 | -58.408 | 5 | 52 | NA | 0.072 | 0.041 | NA | NA | NA | 0.039 | NA | NA | NA | 0.047 | NA | NA | 0.834 | 0.019 |
| Distance ~ p_h_water + water_content + finesilt_and_clay | 1.542 | -58.390 | 4 | 52 | 0.133 | NA | 0.055 | NA | NA | NA | NA | NA | NA | NA | NA | 0.022 | NA | 0.851 | 0.019 |
| Distance ~ p_h_water + water_content + wr | 2.381 | -58.313 | 4 | 52 | 0.082 | NA | 0.063 | 0.021 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.929 | 0.018 |
| Distance ~ p_h_water + water_content + oc_beregnet | 2.325 | -58.281 | 4 | 52 | 0.124 | NA | 0.045 | NA | NA | NA | 0.020 | NA | NA | NA | NA | NA | NA | 0.960 | 0.018 |
| Distance ~ p_h_water + ec + water_content + fine_silt | 2.583 | -58.202 | 5 | 52 | 0.064 | 0.027 | 0.056 | NA | NA | NA | NA | NA | 0.023 | NA | NA | NA | NA | 1.039 | 0.017 |
| Distance ~ p_h_water + water_content + coarse_silt_sand | 1.885 | -58.136 | 4 | 52 | 0.147 | NA | 0.044 | NA | NA | NA | NA | NA | NA | 0.018 | NA | NA | NA | 1.105 | 0.016 |
| Distance ~ ec + water_content + shannon_bak | 2.143 | -58.083 | 4 | 52 | NA | 0.057 | 0.085 | NA | NA | NA | NA | NA | NA | NA | 0.048 | NA | NA | 1.158 | 0.016 |
| Distance ~ p_h_water + ec + water_content + ammonium + oc_beregnet | 3.146 | -58.012 | 6 | 52 | 0.048 | 0.038 | 0.042 | NA | 0.027 | NA | 0.026 | NA | NA | NA | NA | NA | NA | 1.230 | 0.015 |
| Distance ~ p_h_water + ammonium + fine_silt | 1.277 | -58.006 | 4 | 52 | 0.143 | NA | NA | NA | 0.046 | NA | NA | NA | 0.036 | NA | NA | NA | NA | 1.235 | 0.015 |
| Distance ~ p_h_water + ammonium + coarse_silt_sand | 1.287 | -57.958 | 4 | 52 | 0.157 | NA | NA | NA | 0.041 | NA | NA | NA | NA | 0.036 | NA | NA | NA | 1.284 | 0.015 |
| Distance ~ p_h_water + ec + water_content + wr + ammonium | 4.187 | -57.952 | 6 | 52 | 0.053 | 0.040 | 0.045 | 0.025 | 0.024 | NA | NA | NA | NA | NA | NA | NA | NA | 1.290 | 0.015 |
| Distance ~ ec + water_content + wr + shannon_bak | 2.941 | -57.950 | 5 | 52 | NA | 0.061 | 0.056 | 0.033 | NA | NA | NA | NA | NA | NA | 0.045 | NA | NA | 1.291 | 0.015 |
| Distance ~ ec + oc_beregnet + shannon_bak | 2.406 | -57.949 | 4 | 52 | NA | 0.072 | NA | NA | NA | NA | 0.083 | NA | NA | NA | 0.048 | NA | NA | 1.292 | 0.015 |
| Distance ~ p_h_water + water_content + clay | 1.252 | -57.948 | 4 | 52 | 0.146 | NA | 0.058 | NA | NA | NA | NA | 0.015 | NA | NA | NA | NA | NA | 1.293 | 0.015 |
| Distance ~ p_h_water + ec + oc_beregnet | 3.120 | -57.948 | 4 | 52 | 0.048 | 0.040 | NA | NA | NA | NA | 0.045 | NA | NA | NA | NA | NA | NA | 1.294 | 0.015 |
| Distance ~ p_h_water + ec + water_content + nitrat_nitrit | 2.452 | -57.931 | 5 | 52 | 0.062 | 0.027 | 0.062 | NA | NA | 0.019 | NA | NA | NA | NA | NA | NA | NA | 1.310 | 0.015 |
| Distance ~ ec + water_content + ammonium + oc_beregnet + shannon_bak | 3.193 | -57.917 | 6 | 52 | NA | 0.073 | 0.041 | NA | 0.028 | NA | 0.039 | NA | NA | NA | 0.047 | NA | NA | 1.325 | 0.015 |
| Distance ~ p_h_water + ammonium | 1.046 | -57.904 | 3 | 52 | 0.158 | NA | NA | NA | 0.049 | NA | NA | NA | NA | NA | NA | NA | NA | 1.338 | 0.015 |
| Distance ~ p_h_water + ec + ammonium | 2.092 | -57.903 | 4 | 52 | 0.076 | 0.035 | NA | NA | 0.044 | NA | NA | NA | NA | NA | NA | NA | NA | 1.338 | 0.015 |
| Distance ~ p_h_water + water_content + ammonium + fine_silt | 3.188 | -57.896 | 5 | 52 | 0.130 | NA | 0.033 | NA | 0.023 | NA | NA | NA | 0.021 | NA | NA | NA | NA | 1.345 | 0.015 |
| Distance ~ p_h_water + ec + water_content + wr + oc_beregnet | 4.304 | -57.895 | 6 | 52 | 0.054 | 0.041 | 0.045 | 0.025 | NA | NA | 0.023 | NA | NA | NA | NA | NA | NA | 1.347 | 0.015 |
| Distance ~ p_h_water + ec + water_content + finesilt_and_clay | 2.564 | -57.881 | 5 | 52 | 0.064 | 0.027 | 0.054 | NA | NA | NA | NA | NA | NA | NA | NA | 0.018 | NA | 1.360 | 0.014 |
| Distance ~ p_h_water + water_content + ammonium + nitrat_nitrit | 3.186 | -57.877 | 5 | 52 | 0.129 | NA | 0.045 | NA | 0.027 | 0.020 | NA | NA | NA | NA | NA | NA | NA | 1.365 | 0.014 |
| Distance ~ p_h_water + ammonium + finesilt_and_clay | 1.249 | -57.773 | 4 | 52 | 0.146 | NA | NA | NA | 0.046 | NA | NA | NA | NA | NA | NA | 0.033 | NA | 1.468 | 0.014 |
| Distance ~ p_h_water + water_content + ammonium + oc_beregnet | 2.874 | -57.758 | 5 | 52 | 0.128 | NA | 0.044 | NA | 0.027 | NA | 0.019 | NA | NA | NA | NA | NA | NA | 1.483 | 0.014 |
| Distance ~ p_h_water + water_content + dexter_n | 1.041 | -57.706 | 4 | 52 | 0.160 | NA | 0.068 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.012 | 1.536 | 0.013 |
| Distance ~ p_h_water + water_content + ammonium + finesilt_and_clay | 2.857 | -57.650 | 5 | 52 | 0.137 | NA | 0.033 | NA | 0.024 | NA | NA | NA | NA | NA | NA | 0.017 | NA | 1.592 | 0.013 |
| Distance ~ p_h_water + ec + water_content + coarse_silt_sand | 2.883 | -57.649 | 5 | 52 | 0.058 | 0.028 | 0.044 | NA | NA | NA | NA | NA | NA | 0.015 | NA | NA | NA | 1.592 | 0.013 |
| Distance ~ p_h_water + oc_beregnet | 1.211 | -57.609 | 3 | 52 | 0.131 | NA | NA | NA | NA | NA | 0.045 | NA | NA | NA | NA | NA | NA | 1.632 | 0.013 |
| Distance ~ ec + oc_beregnet + fine_silt + shannon_bak | 2.695 | -57.602 | 5 | 52 | NA | 0.069 | NA | NA | NA | NA | 0.081 | NA | 0.030 | NA | 0.049 | NA | NA | 1.640 | 0.013 |
| Distance ~ ec + water_content + ammonium + shannon_bak | 2.433 | -57.563 | 5 | 52 | NA | 0.058 | 0.058 | NA | 0.027 | NA | NA | NA | NA | NA | 0.050 | NA | NA | 1.678 | 0.012 |
| Distance ~ ec + water_content + oc_beregnet | 1.944 | -57.563 | 4 | 52 | NA | 0.114 | 0.042 | NA | NA | NA | 0.041 | NA | NA | NA | NA | NA | NA | 1.679 | 0.012 |
| Distance ~ p_h_water + water_content + wr + ammonium | 2.480 | -57.561 | 5 | 52 | 0.081 | NA | 0.049 | 0.016 | 0.024 | NA | NA | NA | NA | NA | NA | NA | NA | 1.680 | 0.012 |
| Distance ~ p_h_water + ec + water_content + clay | 2.462 | -57.545 | 5 | 52 | 0.062 | 0.029 | 0.056 | NA | NA | NA | NA | 0.014 | NA | NA | NA | NA | NA | 1.696 | 0.012 |
| Distance ~ p_h_water + oc_beregnet + fine_silt | 1.491 | -57.536 | 4 | 52 | 0.114 | NA | NA | NA | NA | NA | 0.040 | NA | 0.034 | NA | NA | NA | NA | 1.705 | 0.012 |
| Distance ~ p_h_water + coarse_silt_sand | 1.030 | -57.534 | 3 | 52 | 0.163 | NA | NA | NA | NA | NA | NA | NA | NA | 0.043 | NA | NA | NA | 1.708 | 0.012 |
| Distance ~ p_h_water + water_content + oc_beregnet + fine_silt | 2.857 | -57.517 | 5 | 52 | 0.114 | NA | 0.035 | NA | NA | NA | 0.017 | NA | 0.024 | NA | NA | NA | NA | 1.725 | 0.012 |
| Distance ~ p_h_water + water_content + ammonium + coarse_silt_sand | 3.352 | -57.504 | 5 | 52 | 0.151 | NA | 0.028 | NA | 0.026 | NA | NA | NA | NA | 0.015 | NA | NA | NA | 1.737 | 0.012 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet | 3.225 | -57.449 | 5 | 52 | 0.082 | NA | 0.046 | 0.023 | NA | NA | 0.023 | NA | NA | NA | NA | NA | NA | 1.792 | 0.012 |
| Distance ~ p_h_water + ec + ammonium + oc_beregnet | 3.133 | -57.449 | 5 | 52 | 0.046 | 0.040 | NA | NA | 0.028 | NA | 0.028 | NA | NA | NA | NA | NA | NA | 1.792 | 0.012 |
| Distance ~ ec + ammonium + oc_beregnet + shannon_bak | 2.454 | -57.440 | 5 | 52 | NA | 0.073 | NA | NA | 0.028 | NA | 0.057 | NA | NA | NA | 0.046 | NA | NA | 1.801 | 0.012 |
| Distance ~ p_h_water + ec + ammonium + coarse_silt_sand | 2.880 | -57.432 | 5 | 52 | 0.063 | 0.027 | NA | NA | 0.041 | NA | NA | NA | NA | 0.028 | NA | NA | NA | 1.809 | 0.012 |
| Distance ~ p_h_water + water_content + ammonium + clay | 2.434 | -57.425 | 5 | 52 | 0.151 | NA | 0.039 | NA | 0.027 | NA | NA | 0.014 | NA | NA | NA | NA | NA | 1.817 | 0.011 |
| Distance ~ p_h_water + ec + water_content + dexter_n | 2.280 | -57.425 | 5 | 52 | 0.064 | 0.031 | 0.060 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.012 | 1.817 | 0.011 |
| Distance ~ p_h_water + water_content + clay + fine_silt | 4.079 | -57.424 | 5 | 52 | 0.125 | NA | 0.060 | NA | NA | NA | NA | 0.016 | 0.027 | NA | NA | NA | NA | 1.817 | 0.011 |
| Distance ~ ec + oc_beregnet + coarse_silt_sand + shannon_bak | 2.649 | -57.408 | 5 | 52 | NA | 0.070 | NA | NA | NA | NA | 0.057 | NA | NA | 0.027 | 0.049 | NA | NA | 1.833 | 0.011 |
| Distance ~ ec + oc_beregnet + shannon_bak + finesilt_and_clay | 2.649 | -57.408 | 5 | 52 | NA | 0.070 | NA | NA | NA | NA | 0.081 | NA | NA | NA | 0.049 | 0.027 | NA | 1.833 | 0.011 |
| Distance ~ p_h_water + ec + oc_beregnet + fine_silt | 3.277 | -57.401 | 5 | 52 | 0.046 | 0.033 | NA | NA | NA | NA | 0.045 | NA | 0.027 | NA | NA | NA | NA | 1.841 | 0.011 |
| Distance ~ ec + water_content + wr + ammonium + shannon_bak | 2.943 | -57.399 | 6 | 52 | NA | 0.062 | 0.052 | 0.033 | 0.027 | NA | NA | NA | NA | NA | 0.045 | NA | NA | 1.842 | 0.011 |
| Distance ~ ec + water_content + oc_beregnet + fine_silt + shannon_bak | 3.225 | -57.392 | 6 | 52 | NA | 0.066 | 0.032 | NA | NA | NA | 0.038 | NA | 0.021 | NA | 0.045 | NA | NA | 1.850 | 0.011 |
| Distance ~ p_h_water + ec + water_content + wr + nitrat_nitrit | 4.186 | -57.390 | 6 | 52 | 0.055 | 0.037 | 0.055 | 0.027 | NA | 0.016 | NA | NA | NA | NA | NA | NA | NA | 1.852 | 0.011 |
| Distance ~ p_h_water + ec + ammonium + fine_silt | 2.551 | -57.357 | 5 | 52 | 0.077 | 0.026 | NA | NA | 0.044 | NA | NA | NA | 0.027 | NA | NA | NA | NA | 1.885 | 0.011 |
| Distance ~ ec + water_content + wr + oc_beregnet + shannon_bak | 3.438 | -57.357 | 6 | 52 | NA | 0.066 | 0.043 | 0.020 | NA | NA | 0.027 | NA | NA | NA | 0.047 | NA | NA | 1.885 | 0.011 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + fine_silt | 3.436 | -57.354 | 6 | 52 | 0.045 | 0.033 | 0.034 | NA | NA | NA | 0.023 | NA | 0.018 | NA | NA | NA | NA | 1.888 | 0.011 |
| Distance ~ p_h_water + water_content + nitrat_nitrit + oc_beregnet | 2.339 | -57.346 | 5 | 52 | 0.109 | NA | 0.042 | NA | NA | 0.022 | 0.019 | NA | NA | NA | NA | NA | NA | 1.895 | 0.011 |
| Distance ~ p_h_water + ec + water_content + ammonium + nitrat_nitrit | 3.265 | -57.326 | 6 | 52 | 0.064 | 0.027 | 0.044 | NA | 0.027 | 0.017 | NA | NA | NA | NA | NA | NA | NA | 1.915 | 0.011 |
| Distance ~ p_h_water + ec | 1.841 | -57.312 | 3 | 52 | 0.088 | 0.040 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.929 | 0.011 |
| Distance ~ p_h_water + oc_beregnet + coarse_silt_sand | 1.685 | -57.305 | 4 | 52 | 0.116 | NA | NA | NA | NA | NA | 0.032 | NA | NA | 0.031 | NA | NA | NA | 1.936 | 0.011 |
| Distance ~ p_h_water + oc_beregnet + finesilt_and_clay | 1.453 | -57.305 | 4 | 52 | 0.116 | NA | NA | NA | NA | NA | 0.039 | NA | NA | NA | NA | 0.031 | NA | 1.936 | 0.011 |
| Distance ~ p_h_water + ec + water_content + ammonium + fine_silt | 3.233 | -57.288 | 6 | 52 | 0.066 | 0.027 | 0.034 | NA | 0.022 | NA | NA | NA | 0.016 | NA | NA | NA | NA | 1.953 | 0.011 |
| Distance ~ p_h_water + fine_silt | 1.161 | -57.248 | 3 | 52 | 0.151 | NA | NA | NA | NA | NA | NA | NA | 0.039 | NA | NA | NA | NA | 1.994 | 0.011 |
| Distance ~ ec + water_content + wr | 1.310 | -57.245 | 4 | 52 | NA | 0.066 | 0.059 | 0.036 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.996 | 0.011 |
Table 2.4: Best models for vegetation abundance
We read in the datasets for environmental layers and generate all possible models to fit, in this case we will limit ourselves to only using at most one variable per ten observations, in this case that means up to 5 variables per model. The code for generating all possible models can be expanded bellow
Model generator bacterial abundance
METADATAS <- list.files(pattern = "PERMANOVA_BACTERIA_", full.names = T) |>
purrr::map(read_excel) |>
purrr::reduce(full_join) |>
janitor::clean_names()
AllForms <- AICcPermanova::make_models(vars = c("p_h_water", "ec",
"water_content", "wr", "ammonium", "nitrat_nitrit", "oc_beregnet",
"clay", "fine_silt", "coarse_silt_sand", "shannon_veg", "finesilt_and_clay",
"dexter_n")
, ncores = 21, k = floor(nrow(METADATAS)/10))
saveRDS(AllForms, "AllFormsBacterialAbund.rds")
openxlsx::write.xlsx(AllForms, "AllFormsBacterialAbund.xlsx")This generate up to 2,380 models to evaluate, which can be downloaded as an excel file here an rds here.
Now before the model fitting, we will filter out models with high degree of multicolinearity using VIF with 5 as a cut off
VIF filter
Filtered <- AICcPermanova::filter_vif(all_forms = AllForms , env_data = METADATAS, ncores = 21)This is then narrowed down to 1,543 models to evaluate
Then in the following code each model is fitted and AICc is calculated to order it
Model fitting code bacterial abund
d <- amp_load(
otutable = "AC_otutale_new.txt",
metadata = "Metadata_mix-samples_AC_Danielsen_final.xlsx")
bac.data.subset = amp_subset_taxa(d, "d__Bacteria")
bacterial_data = amp_subset_samples(d, Investigator == "AC")
bacterial_data = as.data.frame(t(bacterial_data$abund)) %>%
janitor::clean_names()
METADATAS <- METADATAS[match(rownames(bacterial_data), METADATAS$seq_id),]
Fs <- AICcPermanova::fit_models(all_forms = Filtered,
env_data = METADATAS,
veg_data = bacterial_data,
ncores = 21,
method = "bray",
logfile = "BactLog.txt",
strata = "area"
)
saveRDS(Fs, "FSBacterialAbund.rds")
openxlsx::write.xlsx(Fs, "FSBacterialAbund.xlsx")As seen in table 3.1 there are 111 models within 2 AICc of each other, you can see there how many times a variable has been selected
| Variable | Full_Akaike_Adjusted_RSq | Number_of_models |
|---|---|---|
| p_h_water | 0.216 | 111 |
| water_content | 0.031 | 75 |
| oc_beregnet | 0.025 | 66 |
| shannon_veg | 0.020 | 63 |
| wr | 0.005 | 27 |
| fine_silt | 0.006 | 25 |
| dexter_n | 0.003 | 21 |
| coarse_silt_sand | 0.005 | 20 |
| ec | 0.003 | 20 |
| finesilt_and_clay | 0.005 | 19 |
| clay | 0.003 | 17 |
| ammonium | 0.001 | 10 |
| nitrat_nitrit | 0.000 | 3 |
Table 3.1: Number of selected models were variables are present and their Akaike Weighted R squared for the Marginal effect of the terms
Now we can see the top models that have a delta AICc within 2 of the best model in table 3.2 if expanded
Show table of selected models for vegetation presence absence
| form | max_vif | AICc | k | N | p_h_water | ec | water_content | wr | ammonium | nitrat_nitrit | oc_beregnet | clay | fine_silt | coarse_silt_sand | shannon_veg | finesilt_and_clay | dexter_n | DeltaAICc | AICWeight |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Distance ~ p_h_water + water_content + oc_beregnet + fine_silt + shannon_veg | 2.877 | -82.167 | 6 | 52 | 0.241 | NA | 0.034 | NA | NA | NA | 0.032 | NA | 0.027 | NA | 0.034 | NA | NA | 0.000 | 0.017 |
| Distance ~ p_h_water + water_content + oc_beregnet + shannon_veg | 2.341 | -82.119 | 5 | 52 | 0.270 | NA | 0.034 | NA | NA | NA | 0.033 | NA | NA | NA | 0.035 | NA | NA | 0.048 | 0.017 |
| Distance ~ p_h_water + water_content + oc_beregnet + coarse_silt_sand + shannon_veg | 2.601 | -82.057 | 6 | 52 | 0.243 | NA | 0.032 | NA | NA | NA | 0.033 | NA | NA | 0.026 | 0.034 | NA | NA | 0.111 | 0.016 |
| Distance ~ p_h_water + water_content + oc_beregnet + shannon_veg + finesilt_and_clay | 2.601 | -82.057 | 6 | 52 | 0.243 | NA | 0.032 | NA | NA | NA | 0.033 | NA | NA | NA | 0.034 | 0.026 | NA | 0.111 | 0.016 |
| Distance ~ p_h_water + water_content + oc_beregnet + clay + shannon_veg | 2.370 | -81.743 | 6 | 52 | 0.253 | NA | 0.031 | NA | NA | NA | 0.033 | 0.023 | NA | NA | 0.035 | NA | NA | 0.424 | 0.014 |
| Distance ~ p_h_water + water_content + wr + shannon_veg | 2.658 | -81.664 | 5 | 52 | 0.164 | NA | 0.059 | 0.028 | NA | NA | NA | NA | NA | NA | 0.036 | NA | NA | 0.503 | 0.014 |
| Distance ~ p_h_water + water_content + fine_silt + shannon_veg | 1.717 | -81.649 | 5 | 52 | 0.246 | NA | 0.061 | NA | NA | NA | NA | NA | 0.028 | NA | 0.033 | NA | NA | 0.518 | 0.013 |
| Distance ~ p_h_water + oc_beregnet + coarse_silt_sand + shannon_veg | 1.722 | -81.593 | 5 | 52 | 0.243 | NA | NA | NA | NA | NA | 0.047 | NA | NA | 0.029 | 0.034 | NA | NA | 0.575 | 0.013 |
| Distance ~ p_h_water + oc_beregnet + shannon_veg + finesilt_and_clay | 1.514 | -81.593 | 5 | 52 | 0.243 | NA | NA | NA | NA | NA | 0.060 | NA | NA | NA | 0.034 | 0.029 | NA | 0.575 | 0.013 |
| Distance ~ p_h_water + water_content + wr + coarse_silt_sand + shannon_veg | 2.669 | -81.591 | 6 | 52 | 0.159 | NA | 0.041 | 0.028 | NA | NA | NA | NA | NA | 0.026 | 0.036 | NA | NA | 0.577 | 0.013 |
| Distance ~ p_h_water + water_content + shannon_veg | 1.055 | -81.568 | 4 | 52 | 0.301 | NA | 0.067 | NA | NA | NA | NA | NA | NA | NA | 0.033 | NA | NA | 0.599 | 0.013 |
| Distance ~ p_h_water + oc_beregnet + fine_silt + shannon_veg | 1.555 | -81.534 | 5 | 52 | 0.241 | NA | NA | NA | NA | NA | 0.060 | NA | 0.028 | NA | 0.034 | NA | NA | 0.633 | 0.013 |
| Distance ~ p_h_water + water_content + wr + fine_silt + shannon_veg | 2.880 | -81.512 | 6 | 52 | 0.163 | NA | 0.048 | 0.026 | NA | NA | NA | NA | 0.026 | NA | 0.036 | NA | NA | 0.655 | 0.013 |
| Distance ~ p_h_water + water_content + oc_beregnet + fine_silt | 2.857 | -81.508 | 5 | 52 | 0.249 | NA | 0.033 | NA | NA | NA | 0.031 | NA | 0.028 | NA | NA | NA | NA | 0.659 | 0.013 |
| Distance ~ p_h_water + water_content + shannon_veg + finesilt_and_clay | 1.546 | -81.502 | 5 | 52 | 0.252 | NA | 0.059 | NA | NA | NA | NA | NA | NA | NA | 0.033 | 0.027 | NA | 0.665 | 0.012 |
| Distance ~ p_h_water + water_content + wr + shannon_veg + finesilt_and_clay | 2.802 | -81.495 | 6 | 52 | 0.162 | NA | 0.048 | 0.027 | NA | NA | NA | NA | NA | NA | 0.036 | 0.025 | NA | 0.673 | 0.012 |
| Distance ~ p_h_water + water_content + coarse_silt_sand + shannon_veg | 1.886 | -81.477 | 5 | 52 | 0.272 | NA | 0.046 | NA | NA | NA | NA | NA | NA | 0.026 | 0.033 | NA | NA | 0.690 | 0.012 |
| Distance ~ p_h_water + oc_beregnet + shannon_veg | 1.271 | -81.468 | 4 | 52 | 0.282 | NA | NA | NA | NA | NA | 0.066 | NA | NA | NA | 0.034 | NA | NA | 0.700 | 0.012 |
| Distance ~ p_h_water + water_content + oc_beregnet | 2.325 | -81.451 | 4 | 52 | 0.278 | NA | 0.034 | NA | NA | NA | 0.032 | NA | NA | NA | NA | NA | NA | 0.716 | 0.012 |
| Distance ~ p_h_water + water_content + oc_beregnet + coarse_silt_sand | 2.588 | -81.391 | 5 | 52 | 0.252 | NA | 0.032 | NA | NA | NA | 0.032 | NA | NA | 0.027 | NA | NA | NA | 0.776 | 0.012 |
| Distance ~ p_h_water + water_content + oc_beregnet + finesilt_and_clay | 2.588 | -81.391 | 5 | 52 | 0.252 | NA | 0.032 | NA | NA | NA | 0.031 | NA | NA | NA | NA | 0.027 | NA | 0.776 | 0.012 |
| Distance ~ p_h_water + oc_beregnet + clay + shannon_veg | 1.409 | -81.374 | 5 | 52 | 0.254 | NA | NA | NA | NA | NA | 0.061 | 0.026 | NA | NA | 0.034 | NA | NA | 0.793 | 0.012 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + shannon_veg | 3.208 | -81.312 | 6 | 52 | 0.110 | 0.019 | 0.035 | NA | NA | NA | 0.032 | NA | NA | NA | 0.035 | NA | NA | 0.855 | 0.011 |
| Distance ~ p_h_water + water_content + wr + clay + shannon_veg | 2.704 | -81.268 | 6 | 52 | 0.161 | NA | 0.050 | 0.028 | NA | NA | NA | 0.023 | NA | NA | 0.036 | NA | NA | 0.900 | 0.011 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + shannon_veg | 3.610 | -81.228 | 6 | 52 | 0.161 | NA | 0.034 | 0.018 | NA | NA | 0.023 | NA | NA | NA | 0.034 | NA | NA | 0.940 | 0.011 |
| Distance ~ p_h_water + water_content + clay + shannon_veg | 1.252 | -81.171 | 5 | 52 | 0.270 | NA | 0.059 | NA | NA | NA | NA | 0.023 | NA | NA | 0.033 | NA | NA | 0.996 | 0.011 |
| Distance ~ p_h_water + water_content + fine_silt | 1.706 | -81.169 | 4 | 52 | 0.256 | NA | 0.058 | NA | NA | NA | NA | NA | 0.029 | NA | NA | NA | NA | 0.998 | 0.011 |
| Distance ~ p_h_water + water_content | 1.010 | -81.083 | 3 | 52 | 0.312 | NA | 0.063 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.084 | 0.010 |
| Distance ~ p_h_water + water_content + oc_beregnet + shannon_veg + dexter_n | 2.478 | -81.057 | 6 | 52 | 0.269 | NA | 0.034 | NA | NA | NA | 0.034 | NA | NA | NA | 0.030 | NA | 0.016 | 1.111 | 0.010 |
| Distance ~ p_h_water + water_content + oc_beregnet + clay | 2.353 | -81.055 | 5 | 52 | 0.261 | NA | 0.031 | NA | NA | NA | 0.032 | 0.023 | NA | NA | NA | NA | NA | 1.112 | 0.010 |
| Distance ~ p_h_water + water_content + finesilt_and_clay | 1.542 | -81.033 | 4 | 52 | 0.262 | NA | 0.056 | NA | NA | NA | NA | NA | NA | NA | NA | 0.027 | NA | 1.134 | 0.010 |
| Distance ~ p_h_water + oc_beregnet + coarse_silt_sand | 1.685 | -81.015 | 4 | 52 | 0.251 | NA | NA | NA | NA | NA | 0.045 | NA | NA | 0.029 | NA | NA | NA | 1.153 | 0.010 |
| Distance ~ p_h_water + oc_beregnet + finesilt_and_clay | 1.453 | -81.015 | 4 | 52 | 0.251 | NA | NA | NA | NA | NA | 0.056 | NA | NA | NA | NA | 0.029 | NA | 1.153 | 0.010 |
| Distance ~ p_h_water + water_content + coarse_silt_sand | 1.885 | -80.997 | 4 | 52 | 0.282 | NA | 0.045 | NA | NA | NA | NA | NA | NA | 0.027 | NA | NA | NA | 1.170 | 0.010 |
| Distance ~ p_h_water + ec + water_content + wr + shannon_veg | 4.606 | -80.984 | 6 | 52 | 0.087 | 0.020 | 0.055 | 0.028 | NA | NA | NA | NA | NA | NA | 0.036 | NA | NA | 1.183 | 0.010 |
| Distance ~ p_h_water + oc_beregnet + fine_silt | 1.491 | -80.978 | 4 | 52 | 0.249 | NA | NA | NA | NA | NA | 0.056 | NA | 0.028 | NA | NA | NA | NA | 1.189 | 0.010 |
| Distance ~ p_h_water + oc_beregnet | 1.211 | -80.931 | 3 | 52 | 0.293 | NA | NA | NA | NA | NA | 0.061 | NA | NA | NA | NA | NA | NA | 1.237 | 0.009 |
| Distance ~ p_h_water + water_content + wr | 2.381 | -80.921 | 4 | 52 | 0.179 | NA | 0.056 | 0.026 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.246 | 0.009 |
| Distance ~ p_h_water + ec + water_content + shannon_veg | 2.269 | -80.913 | 5 | 52 | 0.126 | 0.020 | 0.058 | NA | NA | NA | NA | NA | NA | NA | 0.033 | NA | NA | 1.254 | 0.009 |
| Distance ~ p_h_water + ec + water_content + fine_silt + shannon_veg | 2.588 | -80.898 | 6 | 52 | 0.129 | 0.019 | 0.058 | NA | NA | NA | NA | NA | 0.027 | NA | 0.033 | NA | NA | 1.270 | 0.009 |
| Distance ~ p_h_water + water_content + clay + fine_silt + shannon_veg | 4.127 | -80.832 | 6 | 52 | 0.247 | NA | 0.064 | NA | NA | NA | NA | 0.019 | 0.024 | NA | 0.034 | NA | NA | 1.335 | 0.009 |
| Distance ~ p_h_water + water_content + oc_beregnet + dexter_n | 2.476 | -80.814 | 5 | 52 | 0.278 | NA | 0.033 | NA | NA | NA | 0.033 | NA | NA | NA | NA | NA | 0.020 | 1.353 | 0.009 |
| Distance ~ p_h_water + water_content + wr + coarse_silt_sand | 2.393 | -80.808 | 5 | 52 | 0.174 | NA | 0.040 | 0.025 | NA | NA | NA | NA | NA | 0.026 | NA | NA | NA | 1.359 | 0.009 |
| Distance ~ p_h_water + oc_beregnet + clay | 1.353 | -80.779 | 4 | 52 | 0.263 | NA | NA | NA | NA | NA | 0.057 | 0.026 | NA | NA | NA | NA | NA | 1.388 | 0.009 |
| Distance ~ p_h_water + water_content + ammonium + oc_beregnet + shannon_veg | 2.894 | -80.752 | 6 | 52 | 0.264 | NA | 0.033 | NA | 0.013 | NA | 0.031 | NA | NA | NA | 0.034 | NA | NA | 1.415 | 0.009 |
| Distance ~ p_h_water + water_content + oc_beregnet + fine_silt + dexter_n | 2.899 | -80.730 | 6 | 52 | 0.248 | NA | 0.034 | NA | NA | NA | 0.032 | NA | 0.027 | NA | NA | NA | 0.019 | 1.437 | 0.008 |
| Distance ~ p_h_water + water_content + wr + fine_silt | 2.595 | -80.723 | 5 | 52 | 0.178 | NA | 0.047 | 0.023 | NA | NA | NA | NA | 0.025 | NA | NA | NA | NA | 1.444 | 0.008 |
| Distance ~ p_h_water + water_content + wr + finesilt_and_clay | 2.515 | -80.693 | 5 | 52 | 0.177 | NA | 0.046 | 0.024 | NA | NA | NA | NA | NA | NA | NA | 0.025 | NA | 1.474 | 0.008 |
| Distance ~ p_h_water + water_content + clay | 1.252 | -80.688 | 4 | 52 | 0.280 | NA | 0.056 | NA | NA | NA | NA | 0.023 | NA | NA | NA | NA | NA | 1.479 | 0.008 |
| Distance ~ p_h_water + ec + water_content + shannon_veg + finesilt_and_clay | 2.567 | -80.671 | 6 | 52 | 0.128 | 0.019 | 0.056 | NA | NA | NA | NA | NA | NA | NA | 0.033 | 0.025 | NA | 1.496 | 0.008 |
| Distance ~ p_h_water + water_content + nitrat_nitrit + oc_beregnet + shannon_veg | 2.353 | -80.664 | 6 | 52 | 0.239 | NA | 0.033 | NA | NA | 0.012 | 0.032 | NA | NA | NA | 0.034 | NA | NA | 1.503 | 0.008 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet | 3.225 | -80.645 | 5 | 52 | 0.178 | NA | 0.033 | 0.018 | NA | NA | 0.025 | NA | NA | NA | NA | NA | NA | 1.522 | 0.008 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet | 3.146 | -80.639 | 5 | 52 | 0.110 | 0.018 | 0.034 | NA | NA | NA | 0.030 | NA | NA | NA | NA | NA | NA | 1.528 | 0.008 |
| Distance ~ p_h_water + wr + oc_beregnet + coarse_silt_sand + shannon_veg | 3.639 | -80.627 | 6 | 52 | 0.158 | NA | NA | 0.017 | NA | NA | 0.031 | NA | NA | 0.028 | 0.034 | NA | NA | 1.540 | 0.008 |
| Distance ~ p_h_water + wr + oc_beregnet + shannon_veg + finesilt_and_clay | 3.639 | -80.627 | 6 | 52 | 0.158 | NA | NA | 0.017 | NA | NA | 0.039 | NA | NA | NA | 0.034 | 0.028 | NA | 1.540 | 0.008 |
| Distance ~ p_h_water + wr + oc_beregnet + shannon_veg | 3.436 | -80.622 | 5 | 52 | 0.161 | NA | NA | 0.018 | NA | NA | 0.047 | NA | NA | NA | 0.033 | NA | NA | 1.546 | 0.008 |
| Distance ~ p_h_water + ec + oc_beregnet + fine_silt + shannon_veg | 3.277 | -80.604 | 6 | 52 | 0.108 | 0.017 | NA | NA | NA | NA | 0.055 | NA | 0.028 | NA | 0.034 | NA | NA | 1.563 | 0.008 |
| Distance ~ p_h_water + ec + oc_beregnet + shannon_veg | 3.187 | -80.598 | 5 | 52 | 0.110 | 0.018 | NA | NA | NA | NA | 0.055 | NA | NA | NA | 0.034 | NA | NA | 1.569 | 0.008 |
| Distance ~ p_h_water + ec + oc_beregnet + coarse_silt_sand + shannon_veg | 3.215 | -80.594 | 6 | 52 | 0.108 | 0.017 | NA | NA | NA | NA | 0.048 | NA | NA | 0.028 | 0.034 | NA | NA | 1.573 | 0.008 |
| Distance ~ p_h_water + ec + oc_beregnet + shannon_veg + finesilt_and_clay | 3.215 | -80.594 | 6 | 52 | 0.108 | 0.017 | NA | NA | NA | NA | 0.055 | NA | NA | NA | 0.034 | 0.028 | NA | 1.573 | 0.008 |
| Distance ~ p_h_water + water_content + oc_beregnet + coarse_silt_sand + dexter_n | 2.651 | -80.592 | 6 | 52 | 0.249 | NA | 0.032 | NA | NA | NA | 0.033 | NA | NA | 0.025 | NA | NA | 0.019 | 1.575 | 0.008 |
| Distance ~ p_h_water + water_content + oc_beregnet + finesilt_and_clay + dexter_n | 2.651 | -80.592 | 6 | 52 | 0.249 | NA | 0.032 | NA | NA | NA | 0.033 | NA | NA | NA | NA | 0.025 | 0.019 | 1.575 | 0.008 |
| Distance ~ p_h_water + water_content + oc_beregnet + clay + fine_silt | 4.362 | -80.549 | 6 | 52 | 0.250 | NA | 0.035 | NA | NA | NA | 0.031 | 0.017 | 0.022 | NA | NA | NA | NA | 1.618 | 0.008 |
| Distance ~ p_h_water + water_content + wr + shannon_veg + dexter_n | 2.721 | -80.513 | 6 | 52 | 0.164 | NA | 0.059 | 0.028 | NA | NA | NA | NA | NA | NA | 0.033 | NA | 0.015 | 1.654 | 0.008 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + fine_silt | 3.349 | -80.503 | 6 | 52 | 0.176 | NA | 0.033 | 0.017 | NA | NA | 0.025 | NA | 0.026 | NA | NA | NA | NA | 1.664 | 0.008 |
| Distance ~ p_h_water + wr + oc_beregnet + fine_silt + shannon_veg | 3.711 | -80.494 | 6 | 52 | 0.159 | NA | NA | 0.016 | NA | NA | 0.038 | NA | 0.026 | NA | 0.033 | NA | NA | 1.674 | 0.008 |
| Distance ~ p_h_water + oc_beregnet + clay + fine_silt + shannon_veg | 3.226 | -80.483 | 6 | 52 | 0.242 | NA | NA | NA | NA | NA | 0.060 | 0.016 | 0.018 | NA | 0.034 | NA | NA | 1.684 | 0.008 |
| Distance ~ p_h_water + wr + oc_beregnet + clay + shannon_veg | 3.520 | -80.478 | 6 | 52 | 0.158 | NA | NA | 0.018 | NA | NA | 0.042 | 0.026 | NA | NA | 0.034 | NA | NA | 1.689 | 0.007 |
| Distance ~ p_h_water + water_content + shannon_veg + dexter_n | 1.104 | -80.477 | 5 | 52 | 0.293 | NA | 0.066 | NA | NA | NA | NA | NA | NA | NA | 0.029 | NA | 0.015 | 1.691 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + shannon_veg + dexter_n | 1.324 | -80.466 | 5 | 52 | 0.280 | NA | NA | NA | NA | NA | 0.066 | NA | NA | NA | 0.029 | NA | 0.016 | 1.701 | 0.007 |
| Distance ~ p_h_water + water_content + wr + clay | 2.420 | -80.462 | 5 | 52 | 0.176 | NA | 0.048 | 0.025 | NA | NA | NA | 0.023 | NA | NA | NA | NA | NA | 1.705 | 0.007 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + coarse_silt_sand | 3.302 | -80.449 | 6 | 52 | 0.175 | NA | 0.032 | 0.017 | NA | NA | 0.024 | NA | NA | 0.026 | NA | NA | NA | 1.718 | 0.007 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + finesilt_and_clay | 3.302 | -80.449 | 6 | 52 | 0.175 | NA | 0.032 | 0.017 | NA | NA | 0.025 | NA | NA | NA | NA | 0.026 | NA | 1.718 | 0.007 |
| Distance ~ p_h_water + water_content + ammonium + shannon_veg | 2.434 | -80.446 | 5 | 52 | 0.285 | NA | 0.039 | NA | 0.015 | NA | NA | NA | NA | NA | 0.032 | NA | NA | 1.721 | 0.007 |
| Distance ~ p_h_water + ec + water_content + coarse_silt_sand + shannon_veg | 2.886 | -80.445 | 6 | 52 | 0.122 | 0.016 | 0.046 | NA | NA | NA | NA | NA | NA | 0.023 | 0.033 | NA | NA | 1.722 | 0.007 |
| Distance ~ p_h_water + water_content + fine_silt + shannon_veg + dexter_n | 1.956 | -80.443 | 6 | 52 | 0.246 | NA | 0.059 | NA | NA | NA | NA | NA | 0.027 | NA | 0.029 | NA | 0.015 | 1.724 | 0.007 |
| Distance ~ p_h_water + ec + water_content + fine_silt | 2.583 | -80.442 | 5 | 52 | 0.131 | 0.019 | 0.056 | NA | NA | NA | NA | NA | 0.028 | NA | NA | NA | NA | 1.725 | 0.007 |
| Distance ~ p_h_water + ec + water_content | 2.269 | -80.435 | 4 | 52 | 0.127 | 0.020 | 0.055 | NA | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.733 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + coarse_silt_sand + shannon_veg + dexter_n | 2.088 | -80.412 | 6 | 52 | 0.243 | NA | NA | NA | NA | NA | 0.045 | NA | NA | 0.027 | 0.030 | NA | 0.015 | 1.756 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + shannon_veg + finesilt_and_clay + dexter_n | 1.531 | -80.412 | 6 | 52 | 0.243 | NA | NA | NA | NA | NA | 0.057 | NA | NA | NA | 0.030 | 0.027 | 0.015 | 1.756 | 0.007 |
| Distance ~ p_h_water + ammonium + oc_beregnet + coarse_silt_sand + shannon_veg | 2.144 | -80.380 | 6 | 52 | 0.242 | NA | NA | NA | 0.014 | NA | 0.031 | NA | NA | 0.029 | 0.034 | NA | NA | 1.788 | 0.007 |
| Distance ~ p_h_water + ammonium + oc_beregnet + shannon_veg + finesilt_and_clay | 1.848 | -80.380 | 6 | 52 | 0.242 | NA | NA | NA | 0.014 | NA | 0.035 | NA | NA | NA | 0.034 | 0.029 | NA | 1.788 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + fine_silt + shannon_veg + dexter_n | 1.563 | -80.363 | 6 | 52 | 0.241 | NA | NA | NA | NA | NA | 0.059 | NA | 0.027 | NA | 0.030 | NA | 0.015 | 1.805 | 0.007 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + fine_silt | 3.436 | -80.358 | 6 | 52 | 0.105 | 0.015 | 0.031 | NA | NA | NA | 0.027 | NA | 0.025 | NA | NA | NA | NA | 1.810 | 0.007 |
| Distance ~ p_h_water + wr + coarse_silt_sand + shannon_veg | 2.652 | -80.347 | 5 | 52 | 0.159 | NA | NA | 0.034 | NA | NA | NA | NA | NA | 0.044 | 0.035 | NA | NA | 1.820 | 0.007 |
| Distance ~ p_h_water + water_content + dexter_n | 1.041 | -80.345 | 4 | 52 | 0.307 | NA | 0.063 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 0.019 | 1.822 | 0.007 |
| Distance ~ p_h_water + water_content + wr + ammonium + shannon_veg | 2.706 | -80.335 | 6 | 52 | 0.164 | NA | 0.038 | 0.027 | 0.013 | NA | NA | NA | NA | NA | 0.036 | NA | NA | 1.833 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + dexter_n | 1.305 | -80.332 | 4 | 52 | 0.292 | NA | NA | NA | NA | NA | 0.063 | NA | NA | NA | NA | NA | 0.021 | 1.836 | 0.007 |
| Distance ~ p_h_water + ammonium + oc_beregnet + fine_silt + shannon_veg | 1.853 | -80.318 | 6 | 52 | 0.240 | NA | NA | NA | 0.014 | NA | 0.035 | NA | 0.029 | NA | 0.034 | NA | NA | 1.849 | 0.007 |
| Distance ~ p_h_water + water_content + fine_silt + dexter_n | 1.956 | -80.295 | 5 | 52 | 0.256 | NA | 0.057 | NA | NA | NA | NA | NA | 0.027 | NA | NA | NA | 0.018 | 1.872 | 0.007 |
| Distance ~ p_h_water + ec + water_content + clay + shannon_veg | 2.463 | -80.291 | 6 | 52 | 0.126 | 0.018 | 0.056 | NA | NA | NA | NA | 0.021 | NA | NA | 0.033 | NA | NA | 1.877 | 0.007 |
| Distance ~ p_h_water + water_content + shannon_veg + finesilt_and_clay + dexter_n | 1.924 | -80.284 | 6 | 52 | 0.252 | NA | 0.056 | NA | NA | NA | NA | NA | NA | NA | 0.029 | 0.026 | 0.014 | 1.884 | 0.007 |
| Distance ~ p_h_water + water_content + clay + fine_silt | 4.079 | -80.281 | 5 | 52 | 0.257 | NA | 0.060 | NA | NA | NA | NA | 0.018 | 0.023 | NA | NA | NA | NA | 1.886 | 0.007 |
| Distance ~ p_h_water + ec + oc_beregnet + clay + shannon_veg | 3.205 | -80.278 | 6 | 52 | 0.109 | 0.016 | NA | NA | NA | NA | 0.055 | 0.024 | NA | NA | 0.034 | NA | NA | 1.889 | 0.007 |
| Distance ~ p_h_water + water_content + coarse_silt_sand + shannon_veg + dexter_n | 2.191 | -80.260 | 6 | 52 | 0.271 | NA | 0.043 | NA | NA | NA | NA | NA | NA | 0.025 | 0.030 | NA | 0.014 | 1.907 | 0.007 |
| Distance ~ p_h_water + ammonium + oc_beregnet + shannon_veg | 1.833 | -80.232 | 5 | 52 | 0.282 | NA | NA | NA | 0.014 | NA | 0.036 | NA | NA | NA | 0.034 | NA | NA | 1.935 | 0.007 |
| Distance ~ p_h_water + ec + water_content + finesilt_and_clay | 2.564 | -80.231 | 5 | 52 | 0.129 | 0.019 | 0.054 | NA | NA | NA | NA | NA | NA | NA | NA | 0.026 | NA | 1.936 | 0.007 |
| Distance ~ p_h_water + water_content + nitrat_nitrit + shannon_veg | 1.433 | -80.230 | 5 | 52 | 0.251 | NA | 0.063 | NA | NA | 0.013 | NA | NA | NA | NA | 0.033 | NA | NA | 1.937 | 0.007 |
| Distance ~ p_h_water + water_content + ammonium + fine_silt + shannon_veg | 3.194 | -80.226 | 6 | 52 | 0.244 | NA | 0.034 | NA | 0.012 | NA | NA | NA | 0.025 | NA | 0.032 | NA | NA | 1.942 | 0.007 |
| Distance ~ p_h_water + water_content + ammonium + coarse_silt_sand + shannon_veg | 3.363 | -80.222 | 6 | 52 | 0.263 | NA | 0.030 | NA | 0.014 | NA | NA | NA | NA | 0.025 | 0.033 | NA | NA | 1.945 | 0.007 |
| Distance ~ p_h_water + ec + water_content + wr | 4.161 | -80.217 | 5 | 52 | 0.091 | 0.020 | 0.052 | 0.025 | NA | NA | NA | NA | NA | NA | NA | NA | NA | 1.950 | 0.007 |
| Distance ~ p_h_water + water_content + ammonium + oc_beregnet | 2.874 | -80.217 | 5 | 52 | 0.275 | NA | 0.034 | NA | 0.014 | NA | 0.030 | NA | NA | NA | NA | NA | NA | 1.950 | 0.007 |
| Distance ~ p_h_water + wr + oc_beregnet | 3.109 | -80.216 | 4 | 52 | 0.178 | NA | NA | 0.019 | NA | NA | 0.048 | NA | NA | NA | NA | NA | NA | 1.952 | 0.007 |
| Distance ~ p_h_water + water_content + oc_beregnet + clay + dexter_n | 2.476 | -80.213 | 6 | 52 | 0.258 | NA | 0.031 | NA | NA | NA | 0.033 | 0.021 | NA | NA | NA | NA | 0.019 | 1.954 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + coarse_silt_sand + dexter_n | 2.084 | -80.206 | 5 | 52 | 0.249 | NA | NA | NA | NA | NA | 0.044 | NA | NA | 0.027 | NA | NA | 0.019 | 1.961 | 0.007 |
| Distance ~ p_h_water + oc_beregnet + finesilt_and_clay + dexter_n | 1.486 | -80.206 | 5 | 52 | 0.249 | NA | NA | NA | NA | NA | 0.055 | NA | NA | NA | NA | 0.027 | 0.019 | 1.961 | 0.007 |
| Distance ~ p_h_water + nitrat_nitrit + oc_beregnet + shannon_veg | 1.562 | -80.197 | 5 | 52 | 0.239 | NA | NA | NA | NA | 0.013 | 0.063 | NA | NA | NA | 0.034 | NA | NA | 1.970 | 0.007 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + coarse_silt_sand | 3.292 | -80.190 | 6 | 52 | 0.106 | 0.015 | 0.030 | NA | NA | NA | 0.030 | NA | NA | 0.023 | NA | NA | NA | 1.977 | 0.006 |
| Distance ~ p_h_water + ec + water_content + oc_beregnet + finesilt_and_clay | 3.292 | -80.190 | 6 | 52 | 0.106 | 0.015 | 0.030 | NA | NA | NA | 0.027 | NA | NA | NA | NA | 0.023 | NA | 1.977 | 0.006 |
| Distance ~ p_h_water + oc_beregnet + fine_silt + dexter_n | 1.510 | -80.185 | 5 | 52 | 0.248 | NA | NA | NA | NA | NA | 0.056 | NA | 0.026 | NA | NA | NA | 0.019 | 1.983 | 0.006 |
| Distance ~ p_h_water + water_content + wr + oc_beregnet + clay | 3.247 | -80.179 | 6 | 52 | 0.174 | NA | 0.030 | 0.018 | NA | NA | 0.025 | 0.023 | NA | NA | NA | NA | NA | 1.988 | 0.006 |
Table 3.2: Best models for bacterial abundance