antsRegistration: A simplified (or full) interface to antsRegistration.

In stnava/itkImageR: Examples using Rcpp to interface R and ITK

Description

Register a pair of images either through the full or simplified interface. Uses file I/O to manage images / transformations.

Usage

antsRegistration( fixed , moving , typeofTransform = c("Rigid","Affine","SyN"),  outprefix="./antsRegOut")

Arguments

fixed	fixed image to which we register the moving image.
movingImage	moving image to be mapped to fixed space.
typeofTransform	Either a one stage rigid/affine mapping or a 2-stage affine+syn mapping. Mutual information metric by default.
outprefix	output will be named with this prefix.

Value

outputs a list containing warped images and transforms. 1 – Failure

Author(s)

Shrinidhi KL, Avants BB

Examples

## Not run: 
# will give the full form of help
antsRegistration( "-h")
# example 1 - simplified, uses antsImages for I/O
antsRegOut<-antsRegistration(fixed=img1,moving=img2,typeofTransform="Affine",outprefix="./test")
# example 2
  fi<-antsImageRead( getANTsRData('r16') ,2)
  mi<-antsImageRead( getANTsRData('r64') ,2)
  mytx<-antsRegistration(fixed=fi , moving=mi , typeofTransform = c("SyN"), outprefix=paste(tempdir(),"/Z",sep=''))
  mywarpedimage<-antsApplyTransforms(fixed=fi,moving=mi,transformlist=mytx$fwdtransforms)
  par(mfrow=c(1,2))
  plotANTsImage(fi) 
  plotANTsImage(mywarpedimage) 
# example 3 - full access, only uses file-based I/O 
  antsRegistration( list( d=2,m="mi[r16slice.nii.gz,r64slice.nii.gz,1,20,Regular,0.05]", t="affine[1.0]", c="2100x1200x1200x0",  s="3x2x1x0", f="4x3x2x1", u="1", o="[xtest,xtest.nii.gz,xtest_inv.nii.gz]" ) )

## End(Not run)

stnava/itkImageR documentation built on May 30, 2019, 7:21 p.m.