compute_time_spent {cfda}

Compute time spent in each state

Description

For each individual, compute the time spent in each state

Usage

compute_time_spent(data)

Arguments

data

data.frame containing id, id of the trajectory, time, time at which a change occurs and state, associated state.

Value

a matrix with K columns containing the total time spent in each state for each individual

Author(s)

Cristian Preda, Quentin Grimonprez

See Also

boxplot.timeSpent

Other Descriptive statistics: boxplot.timeSpent(), compute_duration(), compute_number_jumps(), estimate_pt(), hist.duration(), hist.njump(), plot.pt(), plotData(), statetable(), summary_cfd()

Examples

# Simulate the Jukes-Cantor model of nucleotide replacement
K <- 4
PJK <- matrix(1 / 3, nrow = K, ncol = K) - diag(rep(1 / 3, K))
lambda_PJK <- c(1, 1, 1, 1)
d_JK <- generate_Markov(n = 10, K = K, P = PJK, lambda = lambda_PJK, Tmax = 10)

# cut at Tmax = 8
d_JK2 <- cut_data(d_JK, Tmax = 8)

# compute time spent by each id in each state
timeSpent <- compute_time_spent(d_JK2)