Description Usage Arguments Value Examples
View source: R/compute_rates.R
Title
1 2 3 4 5 6 7 8 9 10 11 | compute_rates(
data,
status_col = "status_corr",
time_col = ifelse(is.null(getOption("time_col")), "CensusYear",
getOption("time_col")),
id_col = ifelse(is.null(getOption("id_col")), "idTree", getOption("id_col")),
dead_confirmation_censuses = 2,
byplot = TRUE,
plot_col = ifelse(is.null(getOption("plot_col")), "Plot", getOption("plot_col")),
corrected = TRUE
)
|
data |
data.frame, containing forest inventories in the form of a long-format time series - one line corresponds to a measurement for one individual at a given census time. |
status_col |
character, name of the column corresponding to tree status: 0/FALSE for dead, 1/TRUE for alive. |
time_col |
character, name of the column containing census years. |
id_col |
character, name of the column containing trees unique IDs. |
dead_confirmation_censuses |
integer, defaults to 2: number of consecutive censuses for which a tree is unseen that are needed to consider the tree as dead. NB: for the trees unseen during the dead_confirmation_censuses -1 last inventories, the status cannot be corrected, thus mortality rates should not be calculated for these censuses. |
byplot |
logical, indicating whether the function has to process the data by plot (TRUE)or for the whole dataset (FALSE). |
plot_col |
character, name of the column containing plot indices or names. |
corrected |
Logical, indicates whether the dataset has been corrected (for tree status errors) beforehand. If TRUE, triggers correct_alive, defaults to TRUE. |
a data.frame that contains recruitment and mortality rates, in the same format as the outputs of compute_mortality and compute_recruitment
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