Sections

Installation
Inputs
Mesh Creation
Tutorial 1 - 3D Breast meshing & forward simulation
Tutorial 2 - 2D Spectral reconstruction
More Tutorials
Development

Nirfast

Please reference these if you use Nirfast for a publication:

• H. Dehghani, M.E. Eames, P.K. Yalavarthy, S.C. Davis, S. Srinivasan, C.M. Carpenter, B.W. Pogue, and K.D. Paulsen, “Near infrared optical tomography using NIRFAST: Algorithm for numerical model and image reconstruction,” Communications in Numerical Methods in Engineering, vol. 25, 2009, pp. 711-732. (download)

• Michael Jermyn et al. "A Seamless User-Enabling Workflow for Modeling Near-Infrared Light Transport in Tissue," OSA Biomed 2012.

Nirfast is a free and open source FEM-based software package for modeling near infrared (NIR) frequency domain light transport in tissue. The types of problems include:

1. Standard single wavelength absorption and reduced scatter
   
2. Multi-wavelength spectrally constrained models
   
3. Fluorescence models

For its mesh creation, Nirfast primarily uses meshing tools from its sibling project nirfast-meshing. Users can create multiple-region meshes from:

1. Segmented medical images from MR, CT, X-ray, ... (2D and 3D)
2. 2D boundaries defined as polygons
3. 3D surfaces defined as triangular patches.