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.

MIDAS Installation


Help Files

MIDAS FAQ - Frequently Asked Questions

AutoMask Automated brain and lipid mask creation tool.

Batch Processing - Pipeline processing of multiple studies.

DNPCA Spectral denoising using PCA

EPSI2 Preprocessing for EPSI data.

FDFT MRSI Reconstruction.

FITT Automated parametric spectral analysis.

FITT2 Changes in v2.

IDLSEG Tissue Segmentation

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MRISEG Tissue segmentation Superseded by IDLSEG.

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

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

Agreements

Information on distribution of the EPSI sequence and the MIDAS software is provided on the FAQ page.


Links 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 editing XML files.

TortoiseSVN Source code control system used for MIDAS

7-zip compression utility used in ZipStudy

 

 

 

Last updated May 2021