Difference between revisions of "Downloads"

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==Tutorials==
 
==Tutorials==
 
'''Tutorials for Biomedical Engineers and Clinical Research Users of the NA-MIC Kit'''
 
'''Tutorials for Biomedical Engineers and Clinical Research Users of the NA-MIC Kit'''
* [[Media:Stochastic_June09_1.ppt|Python Stochastic Tractography Module]]
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* [[media:Slicer3Training_WhiteMatterLesions_v2.3.pdf‎|White Matter Lesion Classification]]
 
* [[media:DBP2JohnsHopkinsTransRectalProstateBiopsy_TutorialPres2009June.pdf‎|Trans-rectal MR guided prostate biopsy]] and [[Media:PerkStationSlicerTutorial.pdf‎|PerkStationSlicerTutorial]]
 
* [[media:ARCTIC-Slicer3-Tutorial.ppt‎|ARCTIC: Automatic Regional Cortical ThICkness]]
 
* [[media:Microscopy-Confocal-TrainingTutorial-2009JUNE.pdf|Confocal Microscopy]]
 
* [[media:EMSegment_TrainingTutorial.pdf| Non-human Primates Segmentation Tutorial]]
 
* [[AHM 2010 Tutorial Contest - Hammer Registration | Hammer Registration for Brain MRI]]
 
* [[AHM 2010 Tutorial Contest - CoronaryArteriesCenterlinesVMTK | Centerline Extraction of Coronary Arteries using VMTK]]
 
* [[AHM 2010 Tutorial Contest - EM Fiber Clustering| EM Fiber Clustering]]
 
  
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[[Media:Stochastic_June09_1.ppt|Python Stochastic Tractography Module]]
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[[media:Slicer3Training_WhiteMatterLesions_v2.3.pdf‎|White Matter Lesion Classification]]
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[[media:DBP2JohnsHopkinsTransRectalProstateBiopsy_TutorialPres2009June.pdf‎|Trans-rectal MR guided prostate biopsy]] and [[Media:PerkStationSlicerTutorial.pdf‎|PerkStationSlicerTutorial]]
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[[media:ARCTIC-Slicer3-Tutorial.ppt‎|ARCTIC: Automatic Regional Cortical ThICkness]]
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[[media:Microscopy-Confocal-TrainingTutorial-2009JUNE.pdf|Confocal Microscopy]]
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[[media:EMSegment_TrainingTutorial.pdf| Non-human Primates Segmentation Tutorial]]
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[[AHM 2010 Tutorial Contest - Hammer Registration | Hammer Registration for Brain MRI]]
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[[AHM 2010 Tutorial Contest - CoronaryArteriesCenterlinesVMTK | Centerline Extraction of Coronary Arteries using VMTK]]
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[[AHM 2010 Tutorial Contest - EM Fiber Clustering| EM Fiber Clustering]]
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'''Additional Tutorials'''
 
'''Additional Tutorials'''
  
 
*[http://www.slicer.org/slicerWiki/index.php/Slicer3.4:Training Slicer Training]
 
*[http://www.slicer.org/slicerWiki/index.php/Slicer3.4:Training Slicer Training]

Revision as of 15:46, 11 March 2010

Home < Downloads

The following is a collection of electronic resources provided by NA-MIC. This includes software, data, tutorials, presentations, and additional documentation.

Software

Download Slicer
A general purpose biomedical computing application with extensive built-in visualization and analysis capabilities, accessible through an easy to use graphical interface.

Download the NA-MIC Kit, including Slicer
The NA-MIC Kit is a free open source software platform. The NA-MIC Kit is distributed under a BSD-style license without restrictions or "give-back" requirements and is intended for research, but there are no restrictions on other uses. It consists of the 3D Slicer application software, a number of tools and toolkits such as VTK and ITK, and a software engineering methodology that enables multiplatform implementations.

Data

Brain: Multi-modality (sMRI, DTI, fMRI)
There are 20 cases: ten are Normal Controls and ten are Schizophrenic. Each case includes a weighted T1 scan, a weighted T2 scan, an fMRI scan, a DTI volume, the DWI with 51 directions, and several masks and labelmaps. Available from Harvard.

Brain: 2-4 Year Old
Data for 2 autistic children and 2 normal controls (male, female) scanned at 2 years with follow up at 4 years from a 1.5T Siemens scanner. Files include structural data, tissue segmentation label map and subcortical structures segmentation. Available from UNC.

Prostate: 5 cases
MRI Prostate data. 5 datasets, sagittal and axial scans, with and without needle. Available from Queens.

Prostate: 10 cases
MRI Prostate data. 10 datasets, including a derived segmentation series with labelmaps. Available from Harvard.

Prostate: Transrectal Tutorial Dataset
Transrectal Prostate Biopsy Tutorial Dataset. Walks the user through: Calibration (calibration image for the APT-MRI device), Segmentation (prostate MRI image and seeds for random walk segmentation algorithm), Targeting (target planning prostate MRI image), and Verification (needle insertion verification image). Available from Queens.

Spine Phantom: PerkStation Tutorial Dataset
Perkstation Tutorial Dataset. Available from Queens.

Visible Human Datasets
Visible Human Datasets with some post-processing. Available from Iowa.

Registration Case Library Home Page
Many datasets available so that you can find a case similar enough to your particular image registration problem so that you can copy registration parameters, strategies, and tutorials. Successful registration strategies; algorithm choice and parameters vary greatly for different image contrast and content. Each listed case comprises a test dataset to try yourself, a guided step-by-step tutorial that will show you how to register the case with 3DSlicer, the solution transform so you can compare, and a custom Registration Parameter Presets file with optimized registration parameters that you can load directly into slicer.

Tutorials

Tutorials for Biomedical Engineers and Clinical Research Users of the NA-MIC Kit

Python Stochastic Tractography Module

White Matter Lesion Classification

Trans-rectal MR guided prostate biopsy and PerkStationSlicerTutorial

ARCTIC: Automatic Regional Cortical ThICkness

Confocal Microscopy

Non-human Primates Segmentation Tutorial

Hammer Registration for Brain MRI

Centerline Extraction of Coronary Arteries using VMTK

EM Fiber Clustering

Additional Tutorials