GitHub - sapfluxnet/sapfluxnetr: Working with SAPFLUXNET Project data (original) (raw)
sapfluxnetr
sapfluxnetr
provides tools for a tidy data analysis for the first global database of sap flow measurements (Sapfluxnet Project)
Examples
You can work with individual sites:
load packages
library(sapfluxnetr) library(ggplot2)
ARG_MAZ example site data
data('ARG_MAZ', package = 'sapfluxnetr') data('sfn_metadata_ex', package = 'sapfluxnetr')
plot site sapflow measurements versus vpd
sfn_plot(ARG_MAZ, formula_env = ~ vpd)
daily sapflow and environmental metrics
arg_maz_metrics <- daily_metrics( ARG_MAZ, tidy = TRUE, metadata = sfn_metadata_ex ) #> [1] "Crunching data for ARG_MAZ. In large datasets this could take a while" #> [1] "General data for ARG_MAZ"
plot daily aggregations
ggplot(arg_maz_metrics, aes(x = vpd_q_95, y = sapflow_q_95, colour = pl_code)) + geom_point()
You can work with multiple sites also:
ARG_TRE and AUS_CAN_ST2_MIX example sites
data('ARG_TRE', package = 'sapfluxnetr') data('AUS_CAN_ST2_MIX', package = 'sapfluxnetr') multi_sfn <- sfn_data_multi(ARG_TRE, ARG_MAZ, AUS_CAN_ST2_MIX)
plotting the individual sites. It creates a list of plots
plots_list <- sfn_plot(multi_sfn, formula_env = ~ vpd) plots_list[['AUS_CAN_ST2_MIX']] #> Warning: Removed 526066 rows containing missing values (geom_point).
daily sapflow standard metrics
multi_metrics <- daily_metrics( multi_sfn, tidy = TRUE, metadata = sfn_metadata_ex ) #> [1] "Crunching data for ARG_TRE. In large datasets this could take a while" #> [1] "General data for ARG_TRE" #> [1] "Crunching data for ARG_MAZ. In large datasets this could take a while" #> [1] "General data for ARG_MAZ" #> [1] "Crunching data for AUS_CAN_ST2_MIX. In large datasets this could take a while" #> [1] "General data for AUS_CAN_ST2_MIX"
plot daily aggregations
ggplot(multi_metrics, aes(x = vpd_q_95, y = sapflow_q_95, colour = si_code)) + geom_point(alpha = 0.2) #> Warning: Removed 10966 rows containing missing values (geom_point).
Installation
You can install sapfluxnetr from CRAN:
install.packages('sapfluxnetr')
Be advised, sapfluxnetr
is in active development and can contain undiscovered bugs. If you find something not working as expected fill a bug at https://github.com/sapfluxnet/sapfluxnetr/issues
Overview
Please seevignette('sapfluxnetr-quick-guide', package = 'sapfluxnetr')
for a detailed overview of the package capabilities.