intensityProjection: Intensity Projection

In DragonDuck/MaxContrastProjection: Perform a maximum contrast projection of 3D images along the z-dimension into 2D

Description

Perform an intensity projection of a stack of images. The type of projection depends on the projType

Usage

intensityProjection(imageStack, projType = "max")

Arguments

imageStack	A numeric 3D array-like which should ne projected. The dimensions should be (spatial_1, spatial_2, numer_of_images)
projType	A string indicating the type of projection. Defaults to "max" and can take on the following values: "max", "min", "mean", "median", "sd", "sum"

Details

The projType determines the time of projection to be used:

max

Each pixel of the output image takes on the maximum value of the z-stack underneath the corresponding pixel of the input image stack.

min

Each pixel of the output image takes on the minimum value of the z-stack underneath the corresponding pixel of the input image stack.

mean

Each pixel of the output image takes on the mean value of the z-stack underneath the corresponding pixel of the input image stack.

median

Each pixel of the output image takes on the median value of the z-stack underneath the corresponding pixel of the input image stack.

sd

Each pixel of the output image takes on the standard deviation of the values of the z-stack underneath the corresponding pixel of the input image stack.

sum

Each pixel of the output image takes on the sum of the values of the z-stack underneath the corresponding pixel of the input image stack.

Value

A 2D matrix corresponding to the maximum intensity projection of imageStack

Author(s)

Jan Sauer

Examples

dat = array(c(1,1,2,2,1,2,3,1), dim = c(2,2,2))
proj = intensityProjection(dat, projType = "max")
print(proj)

DragonDuck/MaxContrastProjection documentation built on May 6, 2019, 2:54 p.m.