Compiling outputs from lists
Compiling outputs from lists
compile_data(data, output_type = "list", list_element)
data |
List of elements |
output_type |
Type of desired output. For graphs or models, use "list", for parameters, use "dataframe". |
list_element |
Which elements of the sublists do you wish to compile? |
compile_data converts the outputs of fit_many into a form more readily usable for analysis. Can be used to create dataframe of all fitted parameters, a list of model outputs, a list of graphs for plotting. This function is NOT restricted to compiling outputs from plantecophystools but could be used to compile elements from ANY list of lists.
# Read in your data
# Note that this data is coming from data supplied by the package
# hence the complicated argument in read.csv()
# This dataset is a CO2 by light response curve for a single sunflower
data <- read.csv(system.file("extdata", "A_Ci_Q_data_1.csv",
package = "photosynthesis"
))
# Define a grouping factor based on light intensity to split the ACi
# curves
data$Q_2 <- as.factor((round(data$Qin, digits = 0)))
# Convert leaf temperature to K
data$T_leaf <- data$Tleaf + 273.15
# Fit many curves
fits <- fit_many(
data = data,
varnames = list(
A_net = "A",
T_leaf = "T_leaf",
C_i = "Ci",
PPFD = "Qin"
),
funct = fit_aci_response,
group = "Q_2"
)
# Compile graphs into a list for plotting
fits_graphs <- compile_data(fits,
list_element = 2
)
# Plot one graph from the compiled list
plot(fits_graphs[[1]])Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.