VOI: Extract VOI from 3D image Stack

In AlessioVeneziano/IndianaBones: Analysis of bone 3D morphology

Extract VOI from 3D image Stack

Description

This function extracts a Volume Of Interest (VOI) of the desired size and shape from a 3D image stack.

Usage

VOI(Stack, shape = c("sphere", "cube"), size, pos)

Arguments

Stack	an image stack object
shape	maximum number of 3D pixels (voxels) considered as isolated islands
size	for a spheric VOI, the number of voxels along the diameter of the sphere; for a cubic VOI, number of voxels along the side of the cube.
pos	center position of the VOI.

Details

VOI is a simple function to extract a VOI from a 3D image stack. It needs careful positioning.

Value

An array of dimensions size x size x size containing the VOI subset from the image stack.

Author(s)

Alessio Veneziano

Examples

#Extract a spherical VOI at the barycenter of a Stack
data(exampleStack)
pos<-apply(which(Stack!=0,T),2,mean)
voi<-VOI(exampleStack,"sphere",50,pos)
image(voi[,,20])

AlessioVeneziano/IndianaBones documentation built on Dec. 2, 2022, 7:35 a.m.