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Niftilib

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Niftilib is a set of i/o libraries for reading and writing files in the nifti-1 data format. nifti-1 is a binary file format for storing medical image data, e.g. magnetic resonance image (MRI) and functional MRI (fMRI) brain images.

Niftilib currently has C, Java, MATLAB, and Python libraries; we plan to add some MATLAB/mex interfaces to the C library in the not too distant future.

Insight Segmentation and Registration Toolkit (ITK)

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Your rating: None Average: 3.2 (5 votes)

ITK is an open-source software toolkit for performing registration and segmentation. Segmentation is the process of identifying and classifying data found in a digitally sampled representation. Typically the sampled representation is an image acquired from such medical instrumentation as CT or MRI scanners. Registration is the task of aligning or developing correspondences between data. For example, in the medical environment, a CT scan may be aligned with a MRI scan in order to combine the information contained in both.

Brainstorm

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Brainstorm is a collaborative open-source Matlab application dedicated to magnetoencephalography (MEG) and electroencephalography(EEG) data visualization, processing and cortical source estimation.
The intention is to make a comprehensive set of tools available to the scientific community involved in MEG/EEG experimental research.
For physicians and researchers, the interest of this software package resides in its rich and intuitive graphic interface, which does not require any programming knowledge.

FrameWork for Software Production Line (FW4SPL)

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FW4SPL is a component-oriented architecture with the notion of role-based programming. FW4SPL consists of a set of cross-platform C++ libraries. For now, FW4SPL focuses on the problem of medical images processing and visualization.

STIR

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STIR is Open Source software for use in tomographic imaging. Its aim is to provide a Multi-Platform Object-Oriented framework for all data manipulations in tomographic imaging. Currently, the emphasis is on (iterative) image reconstruction in PET, but other application areas and imaging modalities can and might be added.

STIR is the successor of the PARAPET software library which was the result of a (European Union funded) collaboration between 6 different partners (see Credits).

Grassroots DICOM (GDCM)

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Your rating: None Average: 3.7 (11 votes)

Grassroots DICOM (GDCM) is an implementation of the DICOM standard designed to be open source so that researchers may access clinical data directly. GDCM includes a file format definition and a network communications protocol, both of which should be extended to provide a full set of tools for a researcher or small medical imaging vendor to interface with an existing medical database.

OpenIGTLink

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The goal of OpenIGTLink is to provide a standardized mechanism to connect software/hardware through the network for image-guided therapy (IGT) applications. The features of OpenIGTLink include:

MassChroQ

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MassChroQ (Mass Chromatogram Quantification) software performs quantification of data obtained from mass-spectrometry techniques. It is particularly well suited for peptide quantification of LC-MS (Liquid Chromatography - Mass Spectrometry) data. It performs chromatographic alignment, XIC extraction, peak detection and quantification on identified peptides, with or without isotopic labeling, on high or low resolution data and it takes into account peptide or protein fractionation.

DeVIDE

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DeVIDE, or the Delft Visualisation and Image processing Development Environment, is a cross-platform software framework for the rapid prototyping, testing and deployment of visualisation and image processing algorithms. The software was developed within the Visualisation group. DeVIDE's primary (and currently only) front-end is a data-flow boxes-and-lines network editor. In this regard, it is very similar to AVS, OpenDX, Khoros or VISSION. DeVIDE integrates functionality from libraries such as VTK, ITK, GDCM, DCMTK, numpy and matplotlib. It is being very actively developed.

Ogles2

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Ogles2 is an interactive slice and volume visualization and analysis tool based on Open Inventor / Coin3D. Ogles2 allows for reproducing the workflow of frame based stereotactic neurosurgery. In the long run it strives for being an open source stereotactic planning and analysis system. Ogles2 is NOT APPROVED FOR CLINICAL USE.

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