Search Results for "nifti"
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Showing 23 open source projects for "nifti"
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Neuroglancer
WebGL-based viewer for volumetric data
...Its multi-pane interface synchronizes multiple orthogonal views with a central 3D viewport, making it ideal for analyzing complex brain imaging data such as connectomics datasets. Neuroglancer operates entirely client-side, fetching data over HTTP in a variety of supported formats including Neuroglancer precomputed, N5, Zarr, and NIfTI, among others. The viewer is built with a multi-threaded architecture, separating rendering and data processing to ensure smooth performance even with massive datasets. Extensively used in neuroscience research, Neuroglancer supports integration with tools. -
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libvips
A fast image processing library with low memory needs
...It supports a good range of image formats, including JPEG, JPEG2000, JPEG-XL, TIFF, PNG, WebP, HEIC, AVIF, FITS, Matlab, OpenEXR, PDF, SVG, HDR, PPM / PGM / PFM, CSV, GIF, Analyze, NIfTI, DeepZoom, and OpenSlide. It can also load images via ImageMagick or GraphicsMagick, letting it work with formats like DICOM. It comes with bindings for C, C++, and the command-line. Full bindings are available for Ruby, Python, PHP, C# / .NET, Go, and Lua. -
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SimPET
A web platform for the MC simulation of realistic brain PET data
SimPET (http://www.sim-pet.org) is an open, efficient, and user‐friendly online platform for the generation of synthetic brain PET datasets. The platform offers the ability to generate realistic activity and attenuation maps from patient's PET/CT and MRI images. These maps can then be simulated, and sinograms and simulated images can be downloaded. More advanced features can be obtained by using the SimPET... -
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This project was supported by: European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No 813120 (INSPiRE-MED)
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BrukerEyes
BrukerEyes is an open-source package for Bruker datasets management
BrukerEyes is a cross-platform open-source package for Bruker datasets management. It helps scientists to explore their datasets easily. This project was supported by: European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No 813120 (INSPiRE-MED) © Institute of Scientific Instruments of the Czech Academy of Sciences. -
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18F-DOPA & 123I-FP-CIT templates
18F-DOPA & 123I-FP-CIT (Ioflupane - DaTSCAN) human templates for SPM.
The 18F-DOPA and 123I-FP-CIT (Ioflupane - DaTSCAN) templates are intended for use as templates for SPM automated normalisation. Created for SPM8 but SPM12 compatible. Available in NifTI file format. The updated Templates are symmetrical and adjusted to MNI-space templates from 12 (18F-DOPA) and 30 controls without evidence of nigrostriatal degeneration (123I-FP-CIT). Authors: I. Huertas, J.A. Lojo, F.J. García-Gómez & D. García-Solís. Contact: javier191185@gmail.com Terms of use These images are intended for free use by the neuroimaging community. ... -
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uTIlzReg
Diffeomorphic registration of 2D/3D nifti images
Diffeomorphic registration of 3D images, plus several tools. The program is written in C++ and can be easily compiled using CMake. It works using non-compressed nifti images (.nii). Successfully compiled under linux ubuntu and mac OSX with gcc. NEW: Successfully compiled under Windows with MS Visual C++ 2010 the 19/09/12 (revision 46) -
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Inviwo
Interactive Visualization Workshop
Inviwo is a modern, open-source visualization framework designed for interactive visual data analysis and scientific computing. Built in C++ with a modular, extensible architecture, Inviwo combines a visual editor (for creating data pipelines) with a powerful runtime engine that supports real-time rendering, interaction, and GPU-accelerated processing. It’s widely used in scientific domains for building and sharing visualizations of complex data such as medical imaging, simulations, and... -
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Brain imaging software produced by the Brain Research Imaging Centre of The University of Edinburgh.
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This project, initially developed at University College London, contains programs to perform rigid, affine and non-linear registration of nifti or analyse images. Two versions of the algorithms are included, a CPU- and a GPU- (using CUDA) based implementation.
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3DBrainExplorer is a lightweight OpenGL-based 3D renderer for scientific visualization of volumetric data (NIfTI) featuring real-time image manipulation, AAL brain labels (Tzourio-Mazoyer et al., 2002), SPM5 statistical images and stereo display.
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CamBA is a Linux package for statistical analysis, by script/GUI, of neuroimaging data (fMRI/sMRI), developed at the Brain Mapping Unit, University of Cambridge. Non-parametric permutation-based statistics. Input images: 4D NiFTI files, output: HTML/
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...Ogles started out as a planning system for frame based stereotactic neurosurgery. Ogles(1) is discontinued. Release candidate (RC) is Ogles2b. Ogles is accompanied by a simple DICOM reader and NIfTI converting tool (Sdr2).
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CAnaBIS stands for "Computer Analysis of Brain Image Statistics". Its aim is to provide a C++ library of file I/O and efficient computational routines for NifTI brain images.
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libznz with zindex
This is a fast version of libznz used in NIfTI C library
This library provides notable speed-up for seeking in large compressed NIfTI files. It is compatible with the libznz interface which is part of NIfTI C library to handle multidimensional (mostly MRI) images. Only the replacement of the currently available libznz library is necessary. To reach the expected speed-up the compressed NIfTI data has to be indexed with the included tool. To compile the binaries, the sources available in this project have to be replaced with the ones in znzlib folder of project https://sourceforge.net/projects/niftilib/files/nifticlib/nifticlib_2_0_0/ and the nifticlib has to be compiled. -
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DRAMMS
A Deformable Medical Image Registration Toolbox
...Some typical applications of DRAMMS include, -- Cross-subject registration of the same organ (can be brain, breast, cardiac, etc); -- Mono- and Multi-modality registration (MRI, CT, histology); -- Longitudinal registration (pediatric brain growth, cancer development, mouse brain development, etc); -- Registration under missing correspondences (e.g., vascular lesions, tumors, histological cuts). DRAMMS runs in command line in UNIX/Mac OS, It accepts Nifti/ANALYZE/MetaImage image formats. It is fully-automatic --- takes two input images, and generates a registered image and (optionally) the deformation field. More information (installation, tutorial, manual, demonstration, FAQ, etc) can be found at http://www.rad.upenn.edu/sbia/software/dramms/ . -
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MatrixUser
A Multi-functional GUI-based Program for Image Processing and Analysis
The MatrixUser project is moving to GitHub, the latest version can be obtained from https://leoliuf.github.io/MatrixUser/ Most of the medical images (e.g. CT, MRI, PET, etc.) comprises multiple frames which represent slices, phases, timing etc. from the same imaging object. Those images can be saved as multidimensional matrices in Matlab thanks to Matlab's powerful support of multidimensional data representation. However, within Matlab, most of image manipulation functions are limited or... -
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niftilib
** MAIN SITE IS NOW: https://github.com/NIFTI-Imaging/nifti_clib **
niftilib is a collection of i/o routines for the nifti1 neuroimage data format. C (nifticlib), Java (niftijlib), Matlab (niftimatlib), and Python (pynifti) code is available. For nifti format info see: http://nifti.nimh.nih.gov/ -
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This is a general purpose medical image viewer, converter, and manager. It supports reading of DICOM, ACR/NEMA, Papyrus, Nifti, Analyze, and raster images. The goal of this project is to create a very powerful and simple medical image viewer.
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Volumetric file viewer for the human brain. Easy, powerful and flexible fMRI/MRI brain research and clinical neuro-surgery tool. Using state of the art open VTK 3D library, the proven Qt GUI toolkit, coded in Python.
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Glass Brain is a tool specifically designed for displaying neural connections within the human brain given multidimensional scan data and a connectivity graph. This project benefits from Qt, VTK, ITK, and CMake.
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The R2AGUI converts MRI data from the raw PHILIPS PAR/REC format to the popular ANALYZE 7.5 format or the newer Nifti 1.0 format, which is used in SPM (Software package for fMRI post-processing). It has an easy to use interface, and can batch process man
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MATLAB tools to create overlay images from NIfTI or ANALYZE files (neuroimaging format) and convert them to DICOM for use in the clinical environment. Allows radiologists and neurosurgeons easy access to fMRI data. http://paradime.net/research/
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