Description Usage Arguments Value
View source: R/preprocess_mri_across.R
This function performs preprocessing and registration across visits and within visits
1 2 3 4 5 6 7 | preprocess_mri_across(baseline_files, followup_files, baseline_outfiles,
followup_outfiles, retimg = FALSE, maskfile = NULL, correct = TRUE,
correction = "N4", skull_strip = TRUE, bet.opts = "-B -f 0.1 -v",
betcmd = "bet", within.transform = "Rigid",
within.interpolator = "LanczosWindowedSinc",
across.transform = within.transform,
across.interpolator = within.interpolator, verbose = TRUE, ...)
|
baseline_files |
filename of baseline images |
followup_files |
filename of followup images |
baseline_outfiles |
output filenames for baseline images |
followup_outfiles |
output filenames for followup images |
retimg |
(logical) return list of images of class nifti |
maskfile |
Filename (or nifti object) of binary mask for baseline image. If filename exists, skull stripping will be done by masking it. If it does not, then skull stripping will get one from the baseline image |
correct |
Perform bias field correction |
correction |
(character) N3 or N4 correction? |
skull_strip |
do Skull stripping with FSL BET |
bet.opts |
Options to pass to |
betcmd |
Command to pass to |
within.transform |
Transformation for within-visit registration |
within.interpolator |
Interpolator for within-visit registration |
across.transform |
Transformation for across-visit registration |
across.interpolator |
Interpolator for across-visit registration |
verbose |
print diagnostic outputs |
... |
arguments to |
list of objects from preprocess_mri_within
and
registration
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