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.