Open source software for multi-modal optical molecular imaging
Background

A brief history of NIRFAST:
NIRFAST was originally developed in 2001 as a MATLAB-based package used to model near-infrared light propagation through tissue and reconstruct images of optical biomarkers. As research in optical imaging advanced, many of the major innovations introduced in the field, such as coupling optical imaging system with conventional medical imaging modalities to enable multi-modal "spatial priors") imaging, were included in the NIRFAST software.

In the early 2010’s, NIRFAST developers introduced a major update to the software by releasing a vtk-based user interface to import medical images (DICOMS) from conventional imaging systems (MRI, CT, etc.), segment those images into tissue regions, create NIRFAST-compatible finite element meshes, and use those meshes to reconstruct images of optical biomarkers. While closely linked, users still had to download the image processing front-end (called “NIRView”) and MATLAB-based optical computation packages (called “NIRFAST”) separately.


March, 2016: Introducing NIRFASTSlicer
NIRFASTSlicer is the latest version of NIRFAST now available for download, and marks another major milestone for the NIRFAST project. NIRFASTSlicer integrates the traditional NIRFAST optical computation engine (MATLAB code) into a customized version of 3DSlicer, which now handles all of the medical image processing/analysis tasks (replacing NIRView). 3DSlicer is an open-source medical image processing software package well-known in the medical imaging research community. It is maintained by a large community of developers, is highly extensible, and facilitates creation of custom versions for specific applications. In addition to offering a stable, well-maintained platform with cutting edge imaging processing tools for the NIRFAST workflow, this update also provides a single installer.


Ongoing development and archives:
Although the download combines both components into one installer, the 3DSlicer-based image processing interface and Matlab-based computation engine are still developed separately. Development of the MATLAB component is maintained on GitHub, and can be accessed by anyone at the link below. We welcome community input/development!:
NIRFASTSlicer Matlab component on Github


For an archive of past NIRFAST releases (MATLAB component only):
NIRFAST archive (Matlab component)