In-House Diffusion MRI Software
The following is a list of all the unique programs in $G containing the strings "mri" or "tube". Some of it may actually be 3rd-party software, but eventually this page should detail all the programs we've developed to handle diffusion MRI data.
Viewers and Other Interactive Programs
- mriatlas --- Create a PDF "atlas" of one MRIimage or a collection of them.
- mrihdr --- Print the header of an MRIimage file.
- mrislice --- Extract a slice from an MRIimage volume.
DWI Operations
- mricrop --- Crop (or pad) an MRIimage DWI to a new size, measured in voxels. See also diffusionResize.py.
- mrifilt3 --- Apply a linear filter to an MRIimage DWI. Generally used for resampling. See also diffusionResize.py.
- mritransp --- Transpose and/or flip dimensions of an MRIimage DWI.
- nifti2mriimage --- Convert a NIfTI DWI to an MRIimage DWI.
DTI Operations
- mridfit --- Fit diffusion tensors to a collection of MRIimage DWIs. See also run_mridfit.py.
- mritensormult --- Apply a linear transformation to all the tensors in an MRIimage DTI.
- mritensor_v0 --- Compute a wide variety of scalar measures for each tensor in an MRIimage DTI.
Streamtube Operations
- tubegen --- Generate a streamtube model
Deprecated Programs
- mriflipX --- Flip the X coordinate in an MRIimage DTI. Superseded by mritensormult.
Unknown Programs
- mri2analyze
- mri2raw
- mri_to_avw
- mribrukerparms
- mricoordchg
- mriecholabel
- mriechoref
- mriften
- mrigetecholabel
- mrigetechoref
- mrihalf
- mrilentil
- mrilentil2
- mrimask
- mrimaxmin
- mrimkI0
- mrimultifit_9
- mrireadScaleByte
- mrireadScaleFloat
- mrireadScaleInt
- mrireadScaleShort
- mrireadTens
- mrireadTensInterleave
- mrisubset
- mrixform
- test-libmri
- tubeClusterInter
- tubeClusterIntra
- tubeFA
- tubeNorm
- tubecut
- tubedist
- tubefit
- tubefitD
- tubegen.old
- tubeinfo
- tubelength