dramms_with_ravens: Run DRAMMS with RAVENS option

In muschellij2/drammsr: Installs DRAMMS (Deformable Registration via Attribute Matching and Mutual-Saliency Weighting) for Image Registration

Description

Runs DRAMMS on source and target

Usage

dramms_with_ravens(
  source,
  target,
  outfile = NULL,
  outdef = NULL,
  retimg = FALSE,
  opts = NULL,
  label,
  labs = NULL,
  ravens_prefix = NULL,
  verbose = TRUE
)

Arguments

source	Filename (or nifti) to match to target
target	Filename (or nifti) to match source to to target
outfile	Output filename
outdef	output deformation field (it will be in template to subject space)
retimg	return nifti object versus output image
opts	Extra arguments to pass to dramms
label	label image in subject space. Note that the label image must be in uint8 (aka byte, or uchar) datatype.
labs	vector of values of the labels in an image. If not specified, will use all labels from label image that are positive and non-zero. Will fail if more than 5.
ravens_prefix	prefix for all RAVENS maps.
verbose	(logical) print out command before running

Value

If retimg = TRUE, a list of nifti objects consisting of the RAVENS images, the output file (template to subject space), and output deformation field (template to subject space). If retimg = FALSE, a list of the filenames of the output image.

Examples

## Not run: 
require(fslr)
temp = file.path(fsldir(), "data", "standard", "MNI152_T1_1mm.nii.gz")
# get file
#  https://github.com/muschellij2/FSLR_Data/raw/master/01-Baseline_T1.nii.gz
brain = file.path(fsldir(), "data", "standard", "MNI152_T1_1mm_brain.nii.gz")
res = dramms(source = brain, target = temp, retimg = TRUE)

## End(Not run)

muschellij2/drammsr documentation built on Jan. 18, 2021, 11:24 a.m.