Difference between revisions of "Documentation/Nightly/Announcements"

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Image:AirwaySegmentation-ICON.png|[[Documentation/{{documentation/version}}/Extensions/AirwaySegmentation|Airway Segmentation]] to segment the airway from chest CT images.{{updated}}
 
Image:AirwaySegmentation-ICON.png|[[Documentation/{{documentation/version}}/Extensions/AirwaySegmentation|Airway Segmentation]] to segment the airway from chest CT images.{{updated}}
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Image:CardiacAgatstonModuleIamge.png|[http://brainsia.github.io/CardiacAgatstonMeasures/ CardiacAgastonMeasures] to auto-segment the coronary calcium in Cardiac CT scans and then calculate the Agatston score and label statistics {{new}}
 
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Image:CMRTK-logo.png|[[Documentation/{{documentation/version}}/Extensions/CARMA|Cardiac MRI Toolkit]] to analyze cardiac LGE-MRI images. {{updated}}
 
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Image:CarreraSliceEffect.png|[[Documentation/{{documentation/version}}/Modules/CarreraSliceInteractiveSegmenter|CarreraSliceInteractiveSegmenter]] to interactively segment in 3D {{updated}}
 
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Image:I2M_logo.jpg|[[Documentation/{{documentation/version}}/Extensions/CBC_3D_I2MConversion|CBC 3D (CRTC's BCC & Compression) I2M (Image-To-Mesh) Conversion]] for Image Guided Therapy. The extension encapsulates two CLI modules: (1) Body Centric Cubic (BCC) Mesh Generation. (2) Mesh Compression (MC). {{new}}
 
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Image:ChangeTracker logo.png|[[Documentation/{{documentation/version}}/Extensions/ChangeTracker|Change Tracker]] for quantification of the subtle changes in pathology.{{updated}}
 
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Image:CleaverExtension.png|[[Documentation/{{documentation/version}}/Extensions/CleaverExtension|CleaverExtension]] extension bundles the Cleaver meshing tool as a CLI module {{new}}
 
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Image:DiceSimilarityCoefficient.png|[[Documentation/{{documentation/version}}/Extensions/DiceComputation|Dice Computation]] to calculate the Dice Similarity Coefficient (DSC) between multiple label map images.{{updated}}
 
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Image:BaselineFollowupSCANRegisteredCMFreg2.png|[[Documentation/{{documentation/version}}/Extensions/CMFreg|CMFreg]] is a set of tools package for cranio-maxillofacial registration {{updated}}
 
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Image:CornerAnnotationIcon.png|[[Documentation/{{documentation/version}}/Extensions/CornerAnnotation|CornerAnnotation]] is a module to display annotations, time count, node elements on each panels on the Slicer user interface {{updated}}
 
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Image:CurveMakerIcon.png|[[Documentation/{{documentation/version}}/Extensions/CurveMaker|CurveMaker]] is a module to generate a curve based on a list of fiducial points. {{new}}
 
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Image:DTIPrep.png|[[Documentation/{{documentation/version}}/Extensions/DTIPrep|DTI Prep]]: The DWI/DTI Quality Control Processes from DICOM data to qualified DWI image. {{updated}}
 
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Image:DTIProcess-mj.png|[[Documentation/{{documentation/version}}/Extensions/DTIProcess| DTI Process]]: DTI processing and analysis toolkit developed at UNC and University of Utah. Tools in this toolkit include (1) dtiestim, (2) dtiprocess, (3) dtiaverage, (4) fiberprocess and (5) fiberstats. {{updated}}
 
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Image:FastGrowCutEffect.png|[[Documentation/{{documentation/version}}/Modules/FastGrowCut|FastGrowCut]] is an editor effect providing a fast implementation of the GrowCut method that supports multi-label segmentations {{updated}}
 
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Image:FinslerTractography.png|[http://www.nitrc.org/projects/finslertract/|FinslerTractography FinslerTractography] implements the Finsler tractography method with HARDI data as described by J. Melonakos et al., Finsler Active Contours, IEEE Trans PAMI, 30:412-423, 2008. {{new}}
 
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Image:GelDosimetry_Logo_128x128.png|[[Documentation/{{documentation/version}}/Modules/GelDosimetry|GelDosimetryAnalysis]] is a [[Documentation/Nightly/Developers/Slicelets|Slicelet]] covering the gel dosimetry analysis workflow used in commissioning new radiation techniques. {{updated}}
 
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Image:GyroGuide.png|[[Documentation/{{documentation/version}}/Extensions/GyroGuide|GyroGuide]] determines the trajectory angle and depth of puncture path, and transmits the calculated information to the probe for real time navigation. {{new}}
 
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Image:IASEM.png|[[Documentation/{{documentation/version}}/Extensions/IASEM| IASEM]] to segmentation and process of IASEM Electron Microscopy images.{{updated}}
 
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Image:IGynePyIcon.png|[https://github.com/gpernelle/iGyne iGyne] is an open source software for MR-Guided Interstitial Gynecologic Brachytherapy. {{new}}
 
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Image:IntensitySegmenterIcon.png|[http://www.nitrc.org/projects/dentaltools/ IntensitySegmenter] is a simple tool that segments an image according to intensity value. It is mainly used to segment CT scans using the Hounsfield scale but the ranges of intensities and their corresponding labels can be specified in an input text file. {{updated}}
 
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Image:LightWeightRobotIGT.png|[[Documentation/{{documentation/version}}/Extensions/LightWeightRobotIGT|LightWeightRobotIGT]] to manage communication between 3D Slicer and [http://www.kuka-labs.com/de/medical_robotics/projects_studies/ LightWeight] robot. {{new}}
 
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Image:LongitudinalPETCTLogo.png|[[Documentation/{{documentation/version}}/Extensions/LongitudinalPETCT| Longitudinal PET/CT]] to provide a user friendly Slicer interface for quantification of DICOM PET/CT image data.{{updated}
 
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Image:MABMIS_Icon.png|[[Documentation/{{documentation/version}}/Extensions/MABMIS|MABMIS]]: Multi-Atlas Based Group Segmentation {{new}}
 
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Image:MatlabBridgeLogo.png|[[Documentation/{{documentation/version}}/Extensions/MatlabBridge| Matlab Bridge]] to allow running Matlab functions directly in 3D Slicer.{{updated}}
 
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Image:MultidimDataLogo.png|[[Documentation/{{documentation/version}}/Extensions/MultidimData|MultidimData]]: A set of modules for generic multidimensional data management in Slicer (0.2.1) {{new}}
 
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Image:NeedleFinder.png|[[Documentation/{{documentation/version}}/Extensions/NeedleFinder|NeedleFinder]]: NeedleFinder: fast interactive needle detection. It provides interactive tools to segment needles in MR/CT images. It has been mostly tested on MRI from gynelogical brachytherapy cases. {{new}}
 
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Image:PBNRR_logo.jpg|[[Documentation/{{documentation/version}}/Extensions/PBNRR|PBNRR]]: This extension encapsulates a CLI module for the Physics-Based Non-Rigid Registration (PBNRR) method. The PBNRR compensates for the brain shift during the Image-Guided Neurosurgery (IGNS). {{new}}
 
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Image:PAAlogo-small.png|[[Documentation/{{documentation/version}}/Extensions/PercutaneousApproachAnalysis|PercutaneousApproachAnalysis]]: The Percutaneous Approach Analysis is used to calculate and visualize the accessibility of liver tumor with a percutaneous approach. {{new}}
 
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Image:PerkTutorLogo.png|[[Documentation/{{documentation/version}}/Extensions/PerkTutor|PerkTutor]] for training in image-guided needle interventions.{{updated}}
 
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Image:PETDICOMExtension.png|[[Documentation/{{documentation/version}}/Extensions/PETDICOM|PETDICOM]]: The PET DICOM Extension provides tools to import PET Standardized Uptake Value images from DICOM into Slicer. {{new}}
 
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Image:PkModeling.png|[[Documentation/{{documentation/version}}/Extensions/PkModeling| Pk Modeling]] to calculate quantitative parameters from Dynamic Contrast Enhanced DCE-MRI images.{{updated}}
 
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Image:Portplacement_icon.png|[[Documentation/{{documentation/version}}/Extensions/PortPlacement| Port Placement]] to assists in the planning of surgical port placement in laparoscopic procedures.{{updated}}
 
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Image:PyDevRemoteDebugExtension.png|[[Documentation/{{documentation/version}}/Extensions/PyDevRemoteDebug|PyDevRemoteDebug]]: This extension allows remote visual debugging of Python scripts using PyDev (http://pydev.org/) {{new}}
 
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Image:ReportingLogo.png|[[Documentation/{{documentation/version}}/Extensions/Reporting|Reporting]] to create image annotations/markup that are stored in a structured form.{{updated}}
 
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Image:ResectionPlannerLogo.png|[[Documentation/{{documentation/version}}/Extensions/ResectionPlanner|ResectionPlanner]]: Modules for surgical resection planning. {{new}}
 
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<!-- Image:RSSExtension.png|[[Documentation/{{documentation/version}}/Extensions/RSSExtension|RSSExtension]]: User draw some initial seeds, this module perform an interative segmentation in 3D volume. {{new}} -->
 
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Image:ScoliosisLogo.png|[[Documentation/{{documentation/version}}/Extensions/Scoliosis|Scoliosis]]: Extensions pertaining to scoliosis analysis {{updated}}
 
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Image:ShapePopulationViewer.png|[[Documentation/{{documentation/version}}/Extensions/ShapePopulationViewer|ShapePopulationViewer]]: Visualize and interact with multiple surfaces at the same time to easily compare them {{updated}}
 
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Image:SlicerExtension-VMTK.png|http://slicer.vmtk.org/ SlicerExtension-VMTK]: The Vascular Modeling Toolkit as a 3D Slicer4 extension. {{new}}
 
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Image:SlicerIGTLogo.png|[[Documentation/{{documentation/version}}/Extensions/SlicerIGT|SlicerIGT]] to use all the advanced features of 3D Slicer for real-time navigation.{{updated}}
 
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Image:SlicerRT Logo 2.0 128x128.png|[[Documentation/{{documentation/version}}/Extensions/SlicerRT|SlicerRT]] is a tool for powerful radiotherapy research. {{updated}}
 
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Image:TCIABrowser_logo.png|[[Documentation/{{documentation/version}}/Extensions/TCIABrowser|TCIABrowser]]: A Module to connect to TCIA archive, browse the collections, patients and studies and download DICOM files to 3D Slicer. {{new}}
 
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Image:TrackerStabilizer.png|[[Documentation/{{documentation/version}}/Extensions/TrackerStabilizer|Tracker Stabilizer]] to output a filtered transform node based on an tracker input (transform node).{{updated}}
 
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Image:UKFTractography.png|[[Documentation/{{documentation/version}}/Extensions/UKFTractography|UKF Tractography]] a framework which uses an unscented Kalman filter for performing tractography.{{updated}}
 
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Image:VolumeClipLogo.png|[[Documentation/{{documentation/version}}/Extensions/VolumeClip|VolumeClip]]: Clip volumes with surface models and ROI boxes {{new}}
 
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Image:WindowLevelEffectLogo.png|[[Documentation/{{documentation/version}}/Extensions/WindowLevelEffect|Window/Level Effect]] to adjust window/level for volumes using mouse and/or region of interest.{{updated}}
 
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Image:XNATSlicerIcon.jpg|[[Documentation/{{documentation/version}}/Extensions/XNATSlicer| XNAT Slicer]] Secure GUI-based IO with any XNAT server.{{updated}}
 
  
  

Revision as of 07:15, 29 October 2015

Home < Documentation < Nightly < Announcements


For the latest Slicer documentation, visit the read-the-docs.




Nightly


Summary What is 3D Slicer Slicer Nightly Highlights Slicer Training Slicer Extensions Other Improvements, Additions & Documentation

Summary

The community of Slicer developers is proud to announce the release of Slicer Nightly.

  • Slicer Nightly introduces
    • An improved App Store, known as the Extension Manager, for adding plug-ins to Slicer. More than 80 plug-ins and packages of plug-ins are currently available.
    • Close to 150 feature improvements and bug fixes have resulted in improved performance and stability.
    • Improvements to many modules.
  • Click here to download Slicer Nightly for different platforms and find pointers to the source code, mailing lists and the bug tracker.
  • Please note that Slicer continues to be a research package and is not intended for clinical use. Testing of functionality is an ongoing activity with high priority, however, some features of Slicer are not fully tested.
  • The Slicer Training page provides a series of tutorials and data sets for training in the use of Slicer.

slicer.org is the portal to the application, training materials, and the development community.

What is 3D Slicer

3D Slicer is:

  • A software platform for the analysis (including registration and interactive segmentation) and visualization (including volume rendering) of medical images and for research in image guided therapy.
  • A free, open source software available on multiple operating systems: Linux, MacOSX and Windows
  • Extensible, with powerful plug-in capabilities for adding algorithms and applications.

Features include:

  • Multi organ: from head to toe.
  • Support for multi-modality imaging including, MRI, CT, US, nuclear medicine, and microscopy.
  • Bidirectional interface for devices.

There is no restriction on use, but Slicer is not approved for clinical use and intended for research. Permissions and compliance with applicable rules are the responsibility of the user. For details on the license see here

Slicer Nightly Highlights

Slicer Training

The Slicer Training page provides a series of updated tutorials and data sets for training in the use of Slicer Nightly.


  • New Tutorials

  • This is an example of description   NEW

Slicer Extensions

  • New and Improved Extensions

  • Airway Segmentation to segment the airway from chest CT images.  UPDATED

Extensions removed

  • NA

Extensions renamed

Other Improvements, Additions & Documentation

Optimization

  • Improved performance of the rendering pipeline by optimizing observations management
  • Reduced the memory footprint by fixing memory leaks
  • Reduced the size of the installer
  • Faster loading of the image stack (png, jpg, bmp, tiff...)

Rendering / Visualization

  • Added Multi-sampling option

CLI / SlicerExecutionModel

  • Improved CLI AutoRun by ensuring that the slice view is not reset when inputs are updated.
  • CLI input and output files are not removed when in developer mode
  • Reduced the chance of crashes when CLI returns result images

Python scripting

  • Added support for real Qt resources in Python (see r23290 for details).
  • Improved VTK event support by adding a way to specify the CallData type (see here for details).
  • Bundled pydicom python module into the Slicer package
  • Added helper methods to ScriptedLoadableModuleLogic for managing parameter nodes
  • SelfTest: Added the clickAndDrag() method to the scripted module construct. It allows to send synthetic mouse events to the widget specified (qMRMLSliceWidget or qMRMLThreeDView)
  • Improvements to the slicer.util python module.
    • Added modulePath(moduleName) method
    • Added resetThreeDViews/resetSliceViews
    • Added VTKObservationMixin
    • Added getFirstNodeByClassAndName()
    • Added NodeModify context manager: It allows to easily disable modified event associated with a node, and automatically re-enable them and invoking them if it applies.

Other

  • Help / Report a bug: Application error/warning/debug log messages are now saved to file. Added option to copy/paste log file contents of recent Slicer sessions to bug reports.

For Developers

Under the hood

  • Added support for user-defined stereo-viewing options
  • Build-system
    • Improved support for Visual Studio 2013
    • Refactored management of external project launcher settings. See r23724
    • Added option Slicer_ITKV3_COMPATIBILITY. This option enabled by default will allow (if disabled) to build Slicer with ITKv3 compatibility later disabled and ITK_USE_64BITS_IDS enabled.


  • Improved Toolkits

  • Moved from CTK f64b68a to 1c97e54 (499 commits)

  • Moved from CTKAppLauncher v0.1.11 to v0.1.14 (43 commits)

  • Moved from ITK v4.4.1 to v4.6.0 (1089 commits)

  • Moved from OpenIGTLink 66e272d to 849b434 (53 commits)

  • Moved from Qt 4.7.4 to Qt 4.8.6

  • Moved from VTK v5.10.1 to VTK v6.2.0 (5490 commits)

Looking at the Code Changes

From a git checkout you can easily see the all the commits since the time of the 4.4.0 release: 

git log v4.3.0..HEAD

To see a summary of your own commits, you could use something like: 

git log v4.3.0..HEAD  --oneline --author=pieper

see the git log man page for more options.

Commit stats and full changelog

Related Projects

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