add.contours {flowcatchR} | R Documentation

## Add object contours to a `Frames` object Creates a `Frames` object containing raw information, combined with the segmented images and the relative trajectory under analysis

### Description

If a `TrajectorySet` is provided and mode is set to `trajectories`, returns a `Frames` with all trajectories included in the IDs vector painted accordingly. If the mode is set to `particles`, it will just plot the particles (all) on all frames. If no `TrajectorySet` is provided, it will be computed with default parameters. If no `binary.frames` is provided, it will be computed also with default parameters

### Usage

    add.contours(
      raw.frames,
      binary.frames = NULL,
      trajectoryset = NULL,
      trajIDs = NULL,
      mode = "particles",
      col = NULL,
      channel = NULL
    )

### Arguments

`raw.frames` | A `Frames` object with raw images
`binary.frames` | A `Frames` object with preprocessed frames
`trajectoryset` | A `TrajectorySet` object
`trajIDs` | Numeric vector, the ID(s) of the trajectory.
`mode` | A character string, can assume the values `particles` or `trajectories`. Defaults to `particles`
`col` | A vector of color strings
`channel` | A character string, to select which channel to process

### Value

A new `Frames` object with contours of the objects added

### Author(s)

Federico Marini, marinif@uni-mainz.de, 2014

### Examples

    data("MesenteriumSubset")
    ## Not run:
    paintedTrajectories <- add.contours(raw.frames = MesenteriumSubset,
                                        mode = "trajectories",channel="red")
    paintedParticles <- add.contours(raw.frames = MesenteriumSubset,
                                     mode = "particles",channel="red")
    inspect.Frames(paintedTrajectories)
    inspect.Frames(paintedParticles)

    ## End(Not run)

[Package flowcatchR version 1.22.0 Index]