construct transtion matrix from trajectory

construct transtion matrix from trajectory

msm.transitionMatrix(traj, lag, row.normalized = FALSE)

Arguments

traj

State trajectory, either encoded as vector or a filename.

lag

time lag to use for counting jumps: traj[i] -> traj[i+lag].

row.normalized

if TRUE, transition matrix will be row-normalized, encoding jumps by from(row) to(col). Else (default) matrix is column-normalized encoding jumps from(col) to(row).