NIfTI

MediPy

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MediPy is a cross-platform software (Windows, Linux, Mac OS), dedicated to the visualization and processing aspects of medical imaging. It is targeted at both physicians and researchers, being both user-friendly and easy to extend. Physicians will benefit from the pre-programmed tasks (e.g. segmentation, registration, detection of lesions) and the possibility to record new tasks, tailoring the software to each user. The use of standard file formats (Analyze/Nifti, Dicom) allows to load image from many sources, as well as integrate to a PACS.

Homepage: 
https://code.google.com/p/medipy/

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.

Homepage: 
http://neuroimage.usc.edu/brainstorm

MIView

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MIView is an OpenGL based medical image viewer that contains useful tools such as a DICOM anonymizer and format conversion utility. MIView can read DICOM, Analyze/Nifti, and raster images, and can write Analyze/Nifti and raster images. It can also read and convert DICOM mosaic images. The main goal of MIView is to provide a platform to load any type of medical image and be able to view and manipulate the image. Volume rendering is the main type of advanced visualization that I'm trying to implement.

Homepage: 
http://www.gbooksoft.com/

GIMIAS

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GIMIAS is a workflow-oriented environment for solving advanced biomedical image computing and individualized simulation problems, which is extensible through the development of problem-specific plug-ins. In addition, GIMIAS provides an open source framework for efficient development of research and clinical software prototypes integrating contributions from the Physiome community while allowing business-friendly technology transfer and commercial product development.

GIMIAS suites are collections of prototypes that build a complete platform for one or more clinical applications.

Homepage: 
http://www.gimias.org/

ITK-SNAP

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SNAP is a software application used to segment structures in 3D medical images. It provides semi-automatic segmentation using active contour methods, as well as manual delineation and image navigation. In addition to these core functions, SNAP provides a number of supporting utilities. Some of the core advantages of SNAP include

  • Linked cursor for seamless 3D navigation
  • Manual segmentation in three orthogonal planes at once
  • Friendly UI for selecting active contour segmentation parameters
  • Support for many different 3D image formats, including NIfTI
    • Homepage: 
    http://www.itksnap.org/

    DataViewer3D (DV3D)

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    DataViewer3D (DV3D) is a multi-modal imaging data visualization tool offering a cross-platform, open-source solution to simultaneous data overlay visualization requirements of imaging studies.

    Homepage: 
    https://www.ynic.york.ac.uk/software/dv3d

    Dinifti

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    The dinifti program converts MRI images stored in DICOM format to NIfTI format.

    Homepage: 
    http://cbi.nyu.edu/software/dinifti.php

    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.

    Homepage: 
    http://niftilib.sourceforge.net/

    XMedCon

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    The project stands for Medical Image Conversion. Released under the (L)GPL licence, it comes with the full C-source code of the library, a flexible command-line utility and a neat graphical front-end using the Gtk+ toolkit. The supported formats are: Acr/Nema 2.0, Analyze (SPM), Concorde/µPET, DICOM 3.0, CTI ECAT 6/7, NIfTI-1, InterFile3.3 and PNG or Gif87a/89a.

    Homepage: 
    http://xmedcon.sourceforge.net/
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