Wrapper functions that interface with 'FSL' < http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired.
reverse_rpi_orient_file
that was causing ERROR: Could not open file /usr/local/fsl/bin/fslswapdim: 107: [: =: unexpected operator
error.topup
to the exports.fsl_resample
.fsl_cluster
. Removed cluster
from exports due to conflicts.read_xfm
for reading transformations.mid_sagittal_align
for flipping.matrixStats
as unnecessary dependency.topup
and other DTI-based tools.susan
to work properly.fsleyes
in the future release.readnii
/writenii
Added readnii
and writenii
Added ortho_diff
Moved functions such as cal_img to oro.nifti package. They are all legacies, such as cal_img still works, but calibrateImage and other camelCase functions have been made default.
Fixed fsl_biascorrect.