highlightSegmentation {imageHTS} | R Documentation

## Highlight segmented objects in an image

### Description

Highlight segmented objects in an image.

### Usage

      highlightSegmentation(cal, nseg=NULL, cseg=NULL, thick=FALSE, opac=1, col=c('#ffff00', '#ff00ff'), border=FALSE, toRGB=TRUE)

### Arguments

`cal` | An EBImage `Image` object containing the original image.
`nseg` | An optional EBImage `Image` object containing the nucleus mask.
`cseg` | An optional EBImage `Image` object containing the cell mask.
`thick` | A logical indicating whether to use thick borders (useful for print). Default is `FALSE`.
`opac` | A numeric of the opacity value for drawing object contours; can be either a single numeric value or a numeric vector containing two opacity values, the first one for nuclei and the second one for cell bodies. Opacity ranges from 0 to 1, with 0 being fully transparent and 1 fully opaque
`col` | A character vector of two R colors for drawing contours of nuclei and cell bodies. By default, nuclei are highlighted in `yellow` and cells are highlighted in `magenta`.
`border` | A logical indicating whether contours should be closed at borders or not. Default is `FALSE`.
`toRGB` | A logical indicating whether Grayscale images should be promoted to Color ones or not. Default is `TRUE`.

### Details

Highlights nuclei and cells by drawing contours of their boundaries. The colors, opacity, and border thicknes can be customized via the `col`, `opacity`, and `thick` arguments, repsectively.

### Value

An EBImage image containing the annotated image.

### Author(s)

Gregoire Pau, gregoire.pau@embl.de, 2010

### See Also

`segmentWells`

### Examples

    ## see segmentWells for an example of highlightSegmentation
    ## example(segmentWells)

[Package imageHTS version 1.30.0 Index]