F. M. Kirby Research Center for Functional Brain Imaging

Authorized Users - See our secure server for additional information https://godzilla.kennedykrieger.org - use your scheduling login

Latest News - F.M. Kirby Research Center's Philips Achieva 7T MRI

MR Operations

On-Line Scheduling

Scheduling Manual

Request Scheduling Account

Synamps² EEG Setup Procedure

Local Resources

fMRI Support

DICOM and Philips REC files

Kirby Center Phone Numbers

Available Software Packages

F.M. Kirby Research Center & Department of Radiology, Johns Hopkins University	CSX DSX Spectroscopy Analysis Software
Laboratory of Anatomical Brain MRI, Johns Hopkins University	MRI Studio Image Processing Software with Diffusion Tensor Calculation and Fiber Tracking
Image Analysis and Communications Lab, Department of Electrical & Computer Engineering, Johns Hopkins University	CATNAP Coregistration, Adjustment, and Tensor-solving, a Nicely Automated Program
Richard Edden, F.M. Kirby Research Center & Cardiff University, Cardiff, Wales, UK	Susceptability Weighted Imaging (SWI) Tool
Wellcome Department of Cognitive Neurology, University College London	Statistical Parametric Mapping (SPM5, SPM2, SPM99, SPM96), SPM WikiBook
Biostatistics Department, University of Michigan	Statistical nonParametric Mapping (SnPM5b, SnPM99) Manual
Laboratoire d'imagerie biomédicale, Ecole Polytechnique Fédérale de Lausanne	Wavlet-based Statistical Parametric Mapping (WSPM) Example Paper
FMRIB, Department of Clinical Neurology, Oxford University	FMRIB Software Library (FSL 3.2) (FSL 3.3) (FSL 4.0.1)
Scientific and Statistical Computing Core, NIMH, NIH	Analysis of Functional NeuroImages (AFNI) and Surface Mapping with AFNI (SUMA) Online Manuals (2007_05_29_1644) (2006_03_21_1314) Previous version (AFNI 2.56b)
The MIND Institute, University of New Mexico	Group ICA of fMRI Toolbox (GIFT 1.3d) Manual Walkthrough Help pages Fusion ICA Toolbox (FIT 2.0a) Manual Help pages
Medical Numerics, Inc.	MEDx 3.41 - Image Processing Software Package
National Institute of Mental Health, NIH	Functional Imaging Data Analysis Platform (FIDAP)
Center for Magnetic Resonance Research, University of Minnesota	Stimulate - fMRI Analysis Software Package
Institute for Biodiagnostics, National Research Council of Canada	EvIdent 6 - Software for the Detection of Novel and Anticipated Events in Imaging Data Sets Tutorial EROICA (Exploring Regions of Interest with Cluster Analysis) Manual
Research Services Branch, NIH	ImageJ - Image Processing and Analysis in Java
Imaging Sciences Laboratory, Division of Computational Bioscience, CIT, NIH	MIPAV - Medical Image Processing, Analysis and Visualization
CorTechs and the Martinos Center for Biomedical Imaging, Harvard University	Freesurfer - Brain Surface Reconstruction and fMRI Overlay
National Alliance for Medical Image Computing, (NA-MIC)	3D Slicer - Visualization, Registration, Segmentation, and Quantification Of Medical Data
Laboratory of Neuro Imaging, UCLA	Automated Image Registration (AIR 5.2.5) (AIR 3.08 is also available inside MEDx)
Van Essen Lab, Washington University in St. Louis School of Medicine	Caret Help / Tutorial (Computerized Anatomical Reconstruction and Editing Toolkit) and SureFit (Surface Reconstruction by Filtering and Intensity Transformations)
Learning Research and Development Center, University of Pittsburgh	FISwidgets Functional Imaging Software Widgets
SourceForge EEG/MRI Toolbox for Matlab	MRI Toolbox / EEG Toolbox
Cognition and Brain Sciences Unit	ana4dto3d - Analyze 4D to 3D converter

Psychology Software Tools, Inc.	E-Prime - Paradigm Development Software
Cedrus Corp.	SuperLab 4.0, 2.0, 1.0 - Experiment Generator in Psychology
Neurobehavioral Systems	Presentation 9.0 - Stimulus Delivery and Experimental Control
Arrington Research, Inc.	ViewPoint Eye Tracking Software, ViewPointClient Remote Client
Compumedics Neuroscan, Inc.	Neuroscan Manuals, Polhemus Manual
RSNA & Mallinckrodt ERL, Washington University in St. Louis	Central Test Node (CTN) - DICOM Demonstration Software
The MathWorks, Inc.	Matlab Release 14, Technical Computing Language
Research Systems, Inc.	IDL 6.2, Interactive Data Language
Sun Microsystems, Inc.	Sun HPC ClusterTools Sun Studio 1 Enterprise Edition Sun Java Studio 5 Sun ONE Studio 8 C compiler C++ compiler FORTRAN 77 & 90 compilers Sun ONE Application Server 7 StarOffice 7 Java SDK Java RE Java Control Panel JavaHelp Users Guide Javascript JavaScript Client-Side Reference JavaScript Client-Side Guide JavaScript Server-Side Guide Ruby on Rails V880 Documentation
Objective Development Software GmbH.	Sharity - An SMB File System for Unix
O'Reilly Books	Perl Reference Library (authorized users only) Perl in a Nutshell Learning Perl Learning Perl on Win32 Programming Perl Advanced Perl Programming Perl Cookbook
ZK - Simply Ajax Project	Quickstart Guide Developer Guide Developer Reference
Apache Software Foundation	Apache HTTP Server Practical mod_perl
IBM, Inc.	Cloudscape Java- and SQL-based relational database management system (ORDBMS).
Sleepycat Software	BerkeleyDB Berkeley DB
Hughs Technologies	mSQL mini SQL 2.01 database server
MySQL	mySQL mySQL database server
PostgreSQL	PostgreSQL SQL database server
Neuroimaging Informatics Technology Initiative (NIfTI)	niftilib C, Java, and MATLAB libraries for reading nifti-1 files
Miscellaneous Freeware	Amberfish Text retrieval system AnimabobAnimating Brick of Bytes Ant Java build tool< bakefile Makefile generator< Boost Portable C++ libraries doxygen Documentation System GIMP User manual GIMP Library reference Grace Tool to make two-dimensional plots of numerical data ImageMagick Image tools and libraries Karma Visualization Toolkit LessTIF Replacement for OSF/Motif libxml2 XML C parser and toolkit neon HTTP/WebDAV client library Opera Web browser PGP Pretty Good Privacy encryption/decryption RealPlayer Streaming audio/video player Samba SMB/CICS compatible server teTEX TeX and LaTeX documentation xdiff v3.4 GUI differences xmgr XY plotting tool Other Miscellaneous doc files
UNIX	UNIX Man Pages Info Pages

Tomcat 5 Servlet/JSP Container

Authorized Users - See our secure server for additional information https://godzilla.kennedykrieger.org - use your scheduling login

Latest News - F.M. Kirby Research Center's Philips Achieva 7T MRI

MR Operations

On-Line Scheduling

Scheduling Manual

Request Scheduling Account

Synamps2 EEG Setup Procedure

Local Resources

DICOM and Philips REC files

Kirby Center Phone Numbers

Available Software Packages

F.M. Kirby Research Center & Department of Radiology, Johns Hopkins University

CSX DSX Spectroscopy Analysis Software

Laboratory of Anatomical Brain MRI, Johns Hopkins University

MRI Studio Image Processing Software with Diffusion Tensor Calculation and Fiber Tracking

Image Analysis and Communications Lab, Department of Electrical & Computer Engineering, Johns Hopkins University

CATNAP Coregistration, Adjustment, and Tensor-solving, a Nicely Automated Program

Richard Edden, F.M. Kirby Research Center & Cardiff University, Cardiff, Wales, UK

Wellcome Department of Cognitive Neurology, University College London

Statistical Parametric Mapping (SPM5, SPM2, SPM99, SPM96), SPM WikiBook

Biostatistics Department, University of Michigan

Statistical nonParametric Mapping (SnPM5b, SnPM99) Manual

Wavlet-based Statistical Parametric Mapping (WSPM) Example Paper

FMRIB, Department of Clinical Neurology, Oxford University

FMRIB Software Library (FSL 3.2) (FSL 3.3) (FSL 4.0.1)

Scientific and Statistical Computing Core, NIMH, NIH

Analysis of Functional NeuroImages (AFNI) and Surface Mapping with AFNI (SUMA) Online Manuals (2007_05_29_1644) (2006_03_21_1314) Previous version (AFNI 2.56b)

The MIND Institute, University of New Mexico

Group ICA of fMRI Toolbox (GIFT 1.3d) Manual Walkthrough Help pages

Fusion ICA Toolbox (FIT 2.0a) Manual Help pages

MEDx 3.41 - Image Processing Software Package

National Institute of Mental Health, NIH

Functional Imaging Data Analysis Platform (FIDAP)

Center for Magnetic Resonance Research, University of Minnesota

Stimulate - fMRI Analysis Software Package

Institute for Biodiagnostics, National Research Council of Canada

EvIdent 6 - Software for the Detection of Novel and Anticipated Events in Imaging Data Sets TutorialEROICA (Exploring Regions of Interest with Cluster Analysis) Manual

ImageJ - Image Processing and Analysis in Java

MIPAV - Medical Image Processing, Analysis and Visualization

CorTechs and the Martinos Center for Biomedical Imaging, Harvard University

Freesurfer - Brain Surface Reconstruction and fMRI Overlay

3D Slicer - Visualization, Registration, Segmentation, and Quantification Of Medical Data

Laboratory of Neuro Imaging, UCLA

Automated Image Registration (AIR 5.2.5) (AIR 3.08 is also available inside MEDx)

Van Essen Lab, Washington University in St. Louis School of Medicine

Caret Help / Tutorial (Computerized Anatomical Reconstruction and Editing Toolkit) and SureFit (Surface Reconstruction by Filtering and Intensity Transformations)

Learning Research and Development Center, University of Pittsburgh

FISwidgets Functional Imaging Software Widgets

SourceForge EEG/MRI Toolbox for Matlab

MRI Toolbox / EEG Toolbox

Cognition and Brain Sciences Unit

ana4dto3d - Analyze 4D to 3D converter

E-Prime - Paradigm Development Software

SuperLab 4.0, 2.0, 1.0 - Experiment Generator in Psychology

Presentation 9.0 - Stimulus Delivery and Experimental Control

ViewPoint Eye Tracking Software, ViewPointClient Remote Client

Neuroscan Manuals, Polhemus Manual

RSNA & Mallinckrodt ERL, Washington University in St. Louis

Central Test Node (CTN) - DICOM Demonstration Software

Matlab Release 14, Technical Computing Language

Research Systems, Inc.

IDL 6.2, Interactive Data Language

Sun Studio 1 Enterprise Edition

StarOffice 7

Java SDK Java RE Java Control Panel

JavaHelp Users Guide

Javascript

Objective Development Software GmbH.

Sharity - An SMB File System for Unix

Perl Reference Library (authorized users only)

Apache HTTP Server Practical mod_perl

Cloudscape Java- and SQL-based relational database management system (ORDBMS).

BerkeleyDB Berkeley DB

mSQL mini SQL 2.01 database server

mySQL mySQL database server

PostgreSQL SQL database server

niftilib C, Java, and MATLAB libraries for reading nifti-1 files

Miscellaneous Freeware

Amberfish Text retrieval system

AnimabobAnimating Brick of Bytes

Synamps² EEG Setup Procedure

Analysis of Functional NeuroImages (AFNI) and Surface Mapping with AFNI (SUMA) Online Manuals (2007_05_29_1644) (2006_03_21_1314)
Previous version (AFNI 2.56b)

EvIdent 6 - Software for the Detection of Novel and Anticipated Events in Imaging Data Sets Tutorial
EROICA (Exploring Regions of Interest with Cluster Analysis) Manual

Apache HTTP Server
Practical mod_perl