Chris Rorden

AppleSiliconForNeuroimaging. Review the challenges and potential of ARM-based Apple Silicon macOS for brain imaging research

nii2mesh. Convert NIfTI volume to triangulated mesh using marching cubes

surf-ice. GLSL surface rendering source code. Compiled versions available from NITRC. Loads 3DS, CTM, DXF, FreeSurfer, GII (GIfTI), GTS, LWO2, MS3D, MZ3, NV (BrainNetViewer), OBJ, OFF, PLY, STL, VTK. Tractography formats include BFloat, PDB, TCK, TRK, and VTK. Also NIfTI format voxelwise images.

MRIcron. Simple medical imaging visualization tool designed for NIfTI images. Includes dcm2nii for conversion of DICOM, Philips, and other proprietary formats.

Fast-Quadric-Mesh-Simplification-Pascal-. Mesh triangle reduction using quadrics (for Delphi, Lazarus and Pascal)

MRIcroGL10_OLD. DEPRECATED development has moved to https://github.com/rordenlab/MRIcroGL

Clinical. Clinical Toolbox for SPM (https://www.nitrc.org/projects/clinicaltbx/)

NiiStat. NiiStat is a set of Matlab scripts for analyzing neuroimaging data from clinical populations

Metal-Demos. Examples of Apple's Metal API using Lazarus and Ryan Joseph's lazmetalcontrol

MRIcro. macOS Xcode GLSL Volume Render for NIfTI, Bio-Rad Pic, NRRD, Philips, ITK MetaImage, AFNI, Freesurfer, DICOM images.

vx. Simple Volume Renderer

fsl_sub. parallel FSL processing without requiring SGE

niivue-images. Sample NIfTI images for demonstrating and validating NiiVue

nii_preprocess. nii_preprocess adapted for LARC and ABC studies at UofSC

OpenGLCoreTutorials. Cross-platform (Linux, Mac and Windows) OpenGL projects using Core specification

dcm2niix. dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC

surfice_atlas. Convert NIfTI-format atlases to Surface MZ3 meshes

simplifyjs. Live three.js mesh simplification demo https://neurolabusc.github.io/simplifyjs/

Bru2Nii. Bruker ParaVision to NIfTI conversion

gpu_test. Test FSL GPU acceleration (bedpost, eddy, probtrackx)

dcm_qa. DICOM to NIfTI/BIDS validation script

StrokeOutcomeOptimizationProjectDemo. Stroke Outcome Optimization Project (SOOP) Demonstration of Processing and Inference

simd. Evaluating Single Instruction Multiple data (SIMD) with modern compilers, simple mathematics and modern memory constrained computers.

open_source_eegecgemg. Do-It-Yourself Electrophysiology (Arduino, Matlab, Processing)

VolumeRenderingData. Sample datasets for tools like MRIcroGL https://www.nitrc.org/plugins/mwiki/index.php/mricrogl:MainPage

plyview. Demo OpenGL Core GLSL viewer for PLY or OBJ meshes using lazarus

niiTools. Utilities for brain imaging

dcm_validate. A directory with the entire collection of dcm_qa repositories

PyDog. Python Difference of Gaussian (DoG) edge finding demonstration MRI data

NotarizeFPC. Notarizing FreePascal Command Line Tools

simd_crc. Showcase Chromium SIMD CRC

niivue-simplify. Comparison of mesh simplification methods.

AphasiaRecoveryCohortDemo. Aphasia Recovery Cohort (ARC) Demonstration of Processing and Inference

DistanceFields. Rapid thickness estimates for images

dcm_qa_asl. DICOM to NIfTI/BIDS arterial spin labeling validation script

pigz-bench. Test of parallel compression acceleration for Unix (MacOS and Linux)

pigz. A parallel implementation of gzip for modern multi-processor, multi-core machines.

Cancel. Simple continuous measures for assessing spatial neglect

dcm_qa_uih. DICOM validation dataset for United Imaging Healthcare ("UIH") MRI scanners

mri-qa. Magnetic Resonance Imaging Quality Assurance Matlab scripts

dcm_qa_philips. DICOM to NIfTI/BIDS validation script for Philips DICOMs

zlib-bench-python. Test of compression acceleration

SurficeWeb. Web based brain visualization

spatial-processing. Interactive programs showing spatial transforms (Otsu, blur, affine, etc.) and consequences of interpolation.

dcm_qa_xa30. DICOM to NIfTI/BIDS validation script for Siemens XA30

brainageR. Software for generating a brain-predicted age value, using Gaussian Processes regression, implemented in R

PET2BIDS. helps you convert your PET data! raw PET scanner files (e.g. ecat, dicom) and additional side file like .e.g excel sheets

dcm_qa_philips_asl. Philips DICOM to NIfTI/BIDS arterial spin labeling validation script