In-House Diffusion MRI Software

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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.

mri2analyze
mri2raw
mri_to_avw
mriatlas --- Create a PDF "atlas" of one MRIimage or a collection of them.
mribrukerparms
mricoordchg
mricrop --- Crop (or pad) an MRIimage to a new size, measured in voxels. See also diffusionResize.py.
mridfit --- Fit diffusion tensors to a collection of MRIimage DWIs. See also run_mridfit.py.
mriecholabel
mriechoref
mrifilt3 --- Apply a linear filter to an MRIimage. Generally used for resampling. See also diffusionResize.py.
mriflipX --- Flip the X coordinate in an MRIimage DTI. Superseded by mritensormult.
mriften
mrigetecholabel
mrigetechoref
mrihalf
mrihdr --- Read the header of an MRIimage file.
mrilentil
mrilentil2
mrimask
mrimaxmin
mrimkI0
mrimultifit_9
mrireadScaleByte
mrireadScaleFloat
mrireadScaleInt
mrireadScaleShort
mrireadTens
mrireadTensInterleave
mrislice --- Extract a slice from an MRIimage volume.
mrisubset
mritensor_v0
mritensormult --- Apply a linear transformation to all the tensors in an MRIimage DTI.
mritransp
mrixform
nifti2mriimage --- Convert a NIfTI DWI to an MRIimage DWI.
startmricro
test-libmri
tubeClusterInter
tubeClusterIntra
tubeFA
tubeNorm
tubecut
tubedist
tubefit
tubefitD
tubegen --- Generate a streamtube model
tubegen.old
tubeinfo
tubelength

In-House Diffusion MRI Software

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