antsMotionCalculation.Rd
Correct 4D time-series data for motion.
antsMotionCalculation(
img,
mask = NULL,
fixed = NULL,
moreaccurate = 1,
txtype = "Affine",
framewise = 1,
verbose = FALSE,
num_threads = 1,
seed = NULL,
...
)
antsImage, usually 4D.
mask for image (3D). If not provided, estimated from data.
Fixed image to register all timepoints to. If not provided, mean image is used.
strategy desired for motion correction. One of 0 (test) 1 (high-res only), 2 (multi-level inter-subject), 3 (FIXME), or a special method for intraSubjectBOLD.
Type of transform. One of "Affine"
,
"Rigid"
, or
"SyN"
.
Calculate framewise displacement?
enables verbose output.
will execute
Sys.setenv(ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS = num_threads)
before
running to attempt a more reproducible result. See
https://github.com/ANTsX/ANTs/wiki/antsRegistration-reproducibility-issues
for discussion. If NULL
, will not set anything.
will execute
Sys.setenv(ANTS_RANDOM_SEED = seed)
before
running to attempt a more reproducible result. See
https://github.com/ANTsX/ANTs/wiki/antsRegistration-reproducibility-issues
for discussion. If NULL
, will not set anything.
additional argument to .motion_correction
List containing:
moco_img Motion corrected time-series image.
moco_params Data frame of translation parameters.
moco_avg_img Average motion-corrected image.
moco_mask Mask used to calculate framewise displacement.
tsDisplacement Time-series displacement image.
fd Time-series mean and max displacements.
dvars DVARS, derivative of frame-wise intensity changes.