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Metabolite Imaging and Data Analysis
Software
List of Documents
Getting Started
MIDAS_Introduction: A brief overview of the MIDAS project.
MIDAS_Overview: An Overview of MRI and MRSI processing functions in MIDAS.
MIDAS_Tutorial: A comprehensive tutorial of the MIDAS processing.
EPSI_Processing_Introduction: Processing for the volumetric EPSI data.
Main Help Files
MIDAS FAQ - Frequently Asked Questions
AutoMask – Automated brain and lipid mask creation tool.
Batch Processing - Pipeline processing of multiple studies.
EPSI2 – Preprocessing for EPSI data.
FDFT– MRSI Reconstruction.
FITT– Automated parametric spectral analysis.
FITT2– Changes in v2.
IMCALC– Image calculation
IMPORTER– Project management and data import.
LITE– Lipid k-space extrapolation.
METAFIT– Wrapper for iterative FITT
MIDASTools – Button-bar for running MIDAS.
MINT– ROI spectral integration and analysis
MRMask – Brain and Lipid masks from MRI and segmentation.
MRISEG– MRI tissue segmentation.
MSREG– Affine registration between image series.
PRANA– Project Review and Analysis.
QMAPS– Simple quality evaluation of FITT results.
QUID– Display using mosaic format
RefDat - B0 and ECC map formation.
Registration– Spatial registration functions.
SID– MRI and MRSI display.
SINorm – Signal normalization of fitted metabolite images.
SVS– Single Voxel Spectroscopy processing tools.
TIMO– T1 and M0 calculation (still under development)
TMAP– Temperature mapping
Utilities– Miscellaneous utility functions.
Viewer– MRI and MRSI display.
Volumizer – Data organizer.
ZipStudy – Copy study data and compress.
Additional Utilities and Other Information
MIDAS_Delete_Nodes – Delete data and restore to initial processing. See Tutorial.
MIDAS Signal Calibration – Calibration procedure required for SINorm
Analyze_Import_Export – IDL utility and function description for Analyze format I/O
MakeSIData – Program for simulation of MRSI data.
XMLCompare – Utility to compare subject.xml files
GAVA - Spectral simulation using GAMMA (no longer supported, Courtesy B. Soher, available separately).
VESPA - Spectral simulation using GAMMA (Courtesy B. Soher, available separately).
MIDAS Server - Web-based image server supporting the MIDAS Viewer.
Notes - Processing segmentation images for brain lesion studies.
Detailed Implementation and Developer Information
MIDAS_Project_Description - this is the main project definition file.
MidasLibrary – Programmer documentation
MidasParameters – List of parameter definitions
WebLinks to Other Tools and Packages Used
MIDAS – Project home page
IDL – Image Display Language from Harris
FSL – Includes FAST – a segmentation program used in MIDAS
BrainWeb – Simulated MRI data from Montreal Neurological Institute
MRIcro – Display for Analyze files from Chris Rorden
Rview – Full featured display from Colin Studholme
ImageJ – Java display from NIH
MIPAV – Image display
Notepad++ – Text editor, convenient for viewing and editing XML files.
TortoiseSVN – Source code control system used for MIDAS
7-zip – compression utility used in the ZipStudy utility
Last updated Sept 2017