add_waypoints: Add or create waypoints to a trajectory

In dynwrap: Representing and Inferring Single-Cell Trajectories

Add or create waypoints to a trajectory

Description

Waypoints are points along the trajectory, which do not necessarily correspond to cells. They are selected in such a way that all parts of the trajectory are covered

Usage

select_waypoints(
  trajectory,
  n_waypoints = 200,
  trafo = sqrt,
  resolution = sum(trafo(trajectory$milestone_network$length))/n_waypoints,
  recompute = FALSE
)

add_waypoints(
  trajectory,
  n_waypoints = 200,
  trafo = sqrt,
  resolution = sum(trafo(trajectory$milestone_network$length))/n_waypoints,
  recompute = FALSE
)

is_wrapper_with_waypoints(trajectory)

Arguments

trajectory	The trajectory as created by infer_trajectory() or add_trajectory()
n_waypoints	The number of waypoints
trafo	Transformation function of the edge lengths
resolution	The resolution of the waypoints, measured in the same units as the lengths of the milestone network edges, will be automatically computed using n_waypoints
recompute	Force recompute

Value

add_waypoints returns the trajectory with waypoints added, which is a list containing:

• milestone_percentages and progressions: The milestone percentages and progressions of each waypoint, in the same format as the cell equivalents (see add_trajectory()) but with a waypoint_id column instead of a cell_id column

• geodesic_distances: a matrix with the geodesic distance of each waypoint (rows) to every cell (columns)

• waypoint_network: a dataframe containing the network between consecutive waypoints, it contains information on the connected waypoints (from and to) and the edge on which they reside (from_milestone_id and to_milestone_id)

• waypoints: the waypoint identifiers

**select_waypoints returns the list as mentioned in add_waypoints

dynwrap documentation built on July 26, 2023, 5:15 p.m.