snap: Snap the features of the closest particle identified

In flowcatchR: Tools to analyze in vivo microscopy imaging data focused on tracking flowing blood cells

Description

This function combines all classes related to a single experiment in order to deliver a clickable feedback on one of the frames.

Usage

snap(
  raw.frames,
  binary.frames,
  particleset,
  trajectoryset,
  frameID = 1,
  infocol = "yellow",
  infocex = 1,
  showVelocity = FALSE
)

Arguments

raw.frames	A Frames object with the raw frames data
binary.frames	A Frames object with the preprocessed frames data
particleset	A ParticleSet object with the particles data
trajectoryset	A TrajectorySet object with the trajectories data
frameID	The ID of the frame to inspect
infocol	The color to use for plotting the contours and the information on the clicked particle
infocex	The numeric character expansion value as in cex to be used for printing the text on the image
showVelocity	Logical, whether to display additional information on the instantaneous velocity of the particle

Value

An image of the selected frame, rendered in R native graphics, and additionally a list with the coordinates as well as the trajectory ID of the particle closest to the clicked location

Author(s)

Federico Marini, [e-mail], 2015

Examples

## Not run: data(MesenteriumSubset)
binary.frames <- preprocess.Frames(channel.Frames(MesenteriumSubset,"red"))
particleset <- particles(MesenteriumSubset,binary.frames,"red")
trajectoryset <- trajectories(particleset)
snap(MesenteriumSubset,binary.frames,particleset,trajectoryset,frameID=1)

## End(Not run)

flowcatchR documentation built on Nov. 8, 2020, 5:04 p.m.