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| * '''[[Resources/bfc_correction_tool|BFC Correction tool]]:''' This tool allows user guided bias field correction by manually selecting points. * '''[[Resources/BST_SVReg_Utilities|Matlab utility functions:]]''' for processing data generated using BrainSuite and SVReg. * '''[[Resources/prepare_fieldmap|Prepare Fieldmap]]:''' A command line tool for converting scanner saved fieldmap to units of radians/sec. * '''[[http://neuroimage.usc.edu/CurveProtocol.html|Cortical Delineation Protocol]]''' |
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| * '''[[Resources/bfc_correction_tool|BFC Correction tool]]:''' This tool allows user guided bias field correction by manually selecting points. | * '''[[http://mr.usc.edu/download/joint-denoising-for-diffusion-mri-magnitude-images|Joint Denoising of Diffusion MRI Magnitude Images]]''': This tool implements a penalized maximum likelihood estimation method for reducing noise in diffusion MRI magnitude images. |
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| * '''[[http://neuroimage.usc.edu/CurveProtocol.html|Cortical Delineation Protocol]]'''' | * '''[[Resources/BrainSuiteSampleDataset|BrainSuite Sample Dataset]]:''' Mirror of sample dataset for !BrainSuite training. * '''[[Resources/eig2nifti|Eigen file (.eig) to NIfTI converter]]:''' Matlab script to converts {{{.eig.nii.gz}}} files saved by BrainSuite Diffusion Pipeline (BDP) to standard NIfTI-1 format. * [[attachment:tractconnect319.zip|TractConnect]]: Diffusion Fiber Tract Analysis tool for BrainSuite. |
Resources: Tools and Utilities
Following are some software tools that we think may be useful. Please note that while we attempt to make sure software distributed here works as intended, this code is largely research code for which we do not have the resources to provide technical support.
BFC Correction tool: This tool allows user guided bias field correction by manually selecting points.
Matlab utility functions: for processing data generated using BrainSuite and SVReg.
Prepare Fieldmap: A command line tool for converting scanner saved fieldmap to units of radians/sec.
Add sform matrix to NIfTI-1 files: This tool adds sform matrix to NIfTI header, if it is absent.
Joint Denoising of Diffusion MRI Magnitude Images: This tool implements a penalized maximum likelihood estimation method for reducing noise in diffusion MRI magnitude images.
BrainSuite Sample Dataset: Mirror of sample dataset for BrainSuite training.
Eigen file (.eig) to NIfTI converter: Matlab script to converts .eig.nii.gz files saved by BrainSuite Diffusion Pipeline (BDP) to standard NIfTI-1 format.
TractConnect: Diffusion Fiber Tract Analysis tool for BrainSuite.