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Section of Biomedical Image Analysis Department of Radiology University of Pennsylvania 3600 Market Street, Suite 380 Philadelphia, PA 19104 Web: http://www.rad.upenn.edu/sbia/ Email: sbia-software at uphs.upenn.edu Copyright (c) 2011, 2012 University of Pennsylvania. All rights reserved. See http://www.rad.upenn.edu/sbia/software/license.html or COPYING file. INTRODUCTION ============ The Multiplicative Intrinsic Component Optimization (MICO) software implements an algorithm for simultaneous bias field estimation and tissue segmentation [1, 2]. The MICO algorithm estimates the bias field and the true image, which are two multiplicative components of a given MR image. The bias field is approximated by a linear combination of a set of smooth basis functions. The true image is represented by tissue membership functions and the corresponding true intensity means (TIM). The bias field and the true image are optimized by minimizing an energy function in terms of the combination coefficients in the linear combination of the basis functions, the tissue membership functions, and the corresponding TIMs. The initial MATLAB implementation of MICO and the development of the method has been in part developed at the Vanderbilt University Institute of Imaging Science [3] under the supervision of John C. Gore. PACKAGE OVERVIEW ================ Source Package -------------- - BasisProject.cmake Meta-data used by BASIS to configure this package. - CMakeLists.txt Root CMake configuration file. - config/ Package configuration files. - doc/ Software documentation such as the software manual. - example/ Example input files. - include/ Public header files of MICO library. - src/ Source code files. - AUTHORS.txt A list of the people who contributed to this software. - README.txt This readme file. - COPYING.txt The copyright and license notices. - INSTALL.txt Build and installation instructions. Binary Package -------------- For details on where the built executables and libraries, the auxiliary data, and the documentation files are installed, please refer to the INSTALL file. LICENSING ========= See http://www.rad.upenn.edu/sbia/software/license.html or COPYING file. INSTALLATION ============ See build and installation instructions given in the INSTALL file. DOCUMENTATION ============= See the software manual for details on the software including a demonstration of how to apply the software tools provided by this package. The API documentation generated by Doxygen documents the C++ interface of the mico library. External C++ code can link directly to this library to make use of the MICO implementations instead of running the mico command as separate process. You find the API documentation in the doc/api/ subdirectory of your installation (if it was build as part of the build and installation, see instructions in the INSTALL file), or at http://www.rad.upenn.edu/sbia/software/doxygen/mico/1.0/html/. REFERENCES ========== [1] C. Li, C. Gatenby, L. Wang, and J. C. Gore, "A Robust Parametric Method for Bias Field Estimation and Segmentation of MR Images", CVPR 2009 [2] C. Li, F. Li, C. Davatzikos, J. C. Gore, "Multiplicative Intrinsic Component Optimization for Bias Field Estimation and Tissue Segmengation for MRI", to be submitted [3] Vanderbilt University Institute of Imaging Science, http://www.vuiis.vanderbilt.edu/
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