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| − | =Welcome to the 3D Slicer Wiki pages | + | __NOTOC__ |
| + | = Welcome to the 3D Slicer Wiki pages = | ||
| + | {{:Documentation/Nightly/Slicer}} | ||
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| − | + | '''How to use this site:''' | |
| + | * The [http://www.slicer.org Slicer Web pages] provide a guided tour to the application, training materials, and the development community. New users should start there because we try to keep it organized and up to date. | ||
| + | * These wiki pages are more free-form, with notes and reference pages that help support developers and users across multiple sites. You will find good information on the wiki, but it's possible that it's out of date or describes features that are still in the planning phase. | ||
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| + | '''From the Slicer 4 visual blog. For more, see [[Slicer4:VisualBlog| here]]''' | ||
| + | <gallery widths="200px" perrow="5"> | ||
| + | Image:SlicerProstate_Logo_1.0_128x128.png|[[Documentation/Nightly/Extensions/SlicerProstate|SlicerProstate extension]] has been released! Current functionality includes support of MRI-TRUS fusion and implementation of popular DWI MRI models for prostate cancer characterization | ||
| + | Image:2014-08-26-SlicerIGT-EMBC2014Tutorial.png | Pre-conference tutorial session [http://www.slicerigt.org/wp/embc-2014-tutorial/ Building image-guidance systems from open-source components] at IEEE EMBC in Chicago (August 26, 2014). | ||
| + | Image:TCIABrowserLogo.png|The [[Documentation/Nightly/Extensions/TCIABrowser|TCIABrowser extension]] TCIABrowser gives you access to 18 collections of The Cancer Imaging Archive (http://cancerimagingarchive.net/), which contains a total of over 23,000 image series from a variety of manufacturers and of different modalities and organs. | ||
| + | Image:ShapeModelSequenceBrowsing3dOnly.gif| The [[Documentation/Nightly/Extensions/MultidimData|Multidimensional data extension]] allows creating, editing, and visualizing multidimensional data sets in 3D Slicer. Browsing, replaying 4D volumes, reviewing deforming 3D models, replaying tracked ultrasound, tool navigation data in 3D, applying time-varying transforms are now all possible. | ||
| + | Image:UKFTractography_CC.jpg|[[Documentation/Nightly/Extensions/UKFTractography|UKFTractography]] is a module for computing tractography of DWI images using an unscented Kalman filter. Because of its 2-tensor algorithm, it is able to model fiber crossings and capture many more fibers than a single tensor algorithm. | ||
| + | </gallery> | ||
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| − | + | <!-- See page http://www.slicer.org/slicerWiki/index.php/News --> | |
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| − | + | =For Wiki Administration= | |
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| + | * [[Editing Guide:Getting Started|Wiki Editing Guide]] | ||
| + | * [[Documentation/Nightly/WikiCheatSheet|WikiCheatSheet]] | ||
* [[Special:Userlogin|Create user account]] | * [[Special:Userlogin|Create user account]] | ||
| − | * [[Special:Listusers|List | + | * [[Special:Listusers|Users List]] |
| − | * | + | * https://www.slicer.org/index.html can be updated by submitting a Pull Request to https://github.com/Slicer/slicer.org. Wiki web pages are updated on-wiki by registered users. |
Latest revision as of 13:57, 27 November 2019
Welcome to the 3D Slicer Wiki pages
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
How to use this site:
- The Slicer Web pages provide a guided tour to the application, training materials, and the development community. New users should start there because we try to keep it organized and up to date.
- These wiki pages are more free-form, with notes and reference pages that help support developers and users across multiple sites. You will find good information on the wiki, but it's possible that it's out of date or describes features that are still in the planning phase.
From the Slicer 4 visual blog. For more, see here
SlicerProstate extension has been released! Current functionality includes support of MRI-TRUS fusion and implementation of popular DWI MRI models for prostate cancer characterization
Pre-conference tutorial session Building image-guidance systems from open-source components at IEEE EMBC in Chicago (August 26, 2014).
The TCIABrowser extension TCIABrowser gives you access to 18 collections of The Cancer Imaging Archive (http://cancerimagingarchive.net/), which contains a total of over 23,000 image series from a variety of manufacturers and of different modalities and organs.
The Multidimensional data extension allows creating, editing, and visualizing multidimensional data sets in 3D Slicer. Browsing, replaying 4D volumes, reviewing deforming 3D models, replaying tracked ultrasound, tool navigation data in 3D, applying time-varying transforms are now all possible.
UKFTractography is a module for computing tractography of DWI images using an unscented Kalman filter. Because of its 2-tensor algorithm, it is able to model fiber crossings and capture many more fibers than a single tensor algorithm.
|
For the latest Slicer news, visit the community forum: To learn how the Slicer community transitioned away from mailing lists. See below |
News
2018 and beyond
- Latest news are now posted on the Slicer forum: https://discourse.slicer.org
- Lessons learned during and after the transition are posted in the Forum and Website Feedback category.
2017
April
- The proposed transition plan is documented and discussed in a Slicer Discourse forum post
- Thanks to the stewardship of Isaiah Norton and the kindness of the Discourse organization, Slicer forum is graciously hosted under the condition we keep the word "discourse" in the URL: https://discourse.slicer.org
- A group of Slicer community members have extensively discussed the advantages of an updated forum software, and developed a consensus at the 24th Project Week that we test Discourse as a new home for questions and discussion by users and developers of Slicer and any extension/topical communities who are interested.
January
- Lots of Slicer activities at Winter Project Week
2016
November
- Slicer 4.6.2 released!
July
- Discussion about a new user manual page. See here
2015
November
- 17: Slicer 4.5 has been released. See the announcement for more information.
August
- Release schedule for Slicer 4.5 established. RSNA 2015 is target date for the release.
- 17: Ron Kikinis presented the state of 3D Slicer to BISTI, Natcher Building, NIH, Bethesda, MD (download here, ~78MB).
2014
December
- Slicer 4.4 has been released. See the announcement for more information.
April
- Steve Pieper was interviewed on the AllThings3D podcast.
- Nueva sección de documentación en idioma español para la versión 4.3 de 3D Slicer en: sección de documentación
2013
Be sure to check out the NA-MIC Wiki Events page for updated information about tutorials, workshops, and other community events!
Also the Slicer Publication Database has a list of Slicer-related papers and datasets.
November
- Slicer is featured at RSNA 2013. See the RSNA 2013 events page.
September
- Slicer 4.3 has been released. See the announcement for more information.
March
- Slicer presentation at the European Congress of Radiology (ECR 2013) by Pujol et al.
2012
November
- Slicer 4.2 has been released. See the announcement for more information.
July
- The use of Slicer for the needs of the Quantitative Imaging Network is featured in an article by Fedorov et al.
April
- Slicer 4.1 release candidate was presented to the NCIGT 2012 scientific retreat on April 5. About a dozen IGT Slicer developers discussed ideas and priorities for Slicer 4 in IGT
January
- Slicer featured in Scientific American article on astronomy research
- Dozens of Slicer projects at NA-MIC Project Week in Salt Lake City, Utah
2011
November
- Slicer 4.0 has been released during the RSNA. See the announcement for more information.
- Slicer 4.0 was used in training at RSNA 2011.
Slicer 4.0 released in November 2011.
Over 200 attendees at training events in two 90 minute training sessions.
- Slicer developers were active at the CommonTK hackfest in France.
August
- Slicer3 development trunk (and nightly builds) have changed over to Tcl 8.5 and cmake 2.8.5 in order to address some issues with ubuntu 11.04.
- Plans are in place to release slicer4 at RSNA 2011 (end of November). Developers are actively working on making that a usable and feature rich release.
March
- 4th: New Slicer3.6.3 Patch Release
Slicer3.6.3 Patch Released on March 4th, 2011.
February
- A very productive CTK Hackfest made significant progress on new dicom interoperability features that will be a key part of slicer4.
January
2010
October
- Our friends and colleagues at UFP in Barcelona, Spain have released version 1.2 of the Gimias application. This new version includes an interface so that Gimias can discover and execute slicer command line modules to operate on data loaded in Gimias.
September
- The first alpha versions of Slicer4 (the Qt version) are starting to become available. Contact the slicer-devel list if you want access to a binary installer for testing.
- A video has been nominated for official slicer bug fixing anthem ;)
August
- The Slicer 3.6.1 patch release includes several bug fixes and other improvements. A 3.6.2 is in the works for sometime in the next few weeks to capture more bug fixes. See the list of fixed and outstanding issues for Slicer 3.6.x.
July
June
Slicer 3.6 Released in June 2010.
May
- first (05/17) and second (05/25) release candidates for Slicer 3.6
April
- Slicer factoids on Ohloh
- Feature Freeze month! Developers are working on bug fixes, documentation, and performance enhancement.
- Check out Andras Jakab's impressive surgery planning images
March
- New infrastructure software is rapidly evolving in the context of the Common Toolkit working meetings.
- Planning underway for release 3.6 of 3D Slicer
- A slicer review on medfloss
- slicer's debian package page
- slicer ubuntu package that can be installed with the alpha version of Ubuntu 10.04
- A page with information about installing slicer3 on Debian has been started.
- We are starting to make plans for 3D Slicer version 4 (also known as Slicer4). A big step!
January
- January 4-8: 10th Project Week
2009
December
- Lots of activity around the Port of Slicer to Qt
- New Annotation Tools are in the works
November
- Seb Barre from Kitware has taken the lead in adding multiple cameras support to Slicer 3. The work is currently focused on multiple cameras and multiple views, but only one scene. The nightly build contains a new module, called cameras. Jim Miller has added a new layout, called Dual 3D Layout.
Dual 3D layout.
October
- Test of mobile friendly wiki skin
September
- Serious work is beginning on a Slicer3 port to Qt.
- Attila Nagy and his colleagues created a very nice set of presentations and animations with slicer to illustrate 3D reconstruction as applied to otorhinolaryngology. (See Notes).
August
- New images in the visual blog show integration of slicer and BioImageSuite.
July
- Several bug fixes are being rolled into a 3.4.1 patch release, expected for beginning of August.
June
- NA-MIC Summer Project Week was a great success!
- New documentation is available, thanks to the Summer 2009 Tutorial Contest
May
- Slicer 3.4 release
- The 3.4 release branch has been created in subversion
- A punch list of 3.4 bugs is being maintained on the Mantis Bug Tracker.
March
- Development of slicer3.4 is still under way. To check the status, go to the bug tracker and search for the tag "3.4 Targeted fix". Our plan is to fix anything with that tag before branching the release. http://na-mic.org/Mantis/main_page.php The svn trunk for slicer3 is still in "feature freeze" mode, meaning that only fixes should be checked in. Any new development should occur in svn branches for now.
- Developers, please be sure to apply the "3.4 Targeted fix" to anything you are working on for the release.
January
- A product release of Slicer 3.4 is scheduled for Feb/March
- There will be a code freeze on Feb 4, 2009
- Slicer3 and related research project were highlighted and demoed as part of the External Advisory Board meeting of the Neuroimage Analysis Center.
2008
December
- Andrew Farke posted some excellent tutorials on the use of 3D Slicer in paleontology research.
- A training course on use of 3D Slicer by Radiologists was held at RSNA in Chicago.
- NCIGT is hosting a Project Week for developing Image Guided Therapy software that features many slicer projects.
September
- Andras Jakab won second place in Kitware's medical image visualization contest!. The image combines slice viewing, models, volume rendering, and tractography applied to a gamma knife neurooncology radiotherapy planning case. Andras used slicer's registration tools to fuse CT and diffusion MR into a multimodal scene.
Andras Jakab's award winning slicer image.
- A NA-MIC Workshop at MICCAI addressed the creation of ITK-based command line modules for 3D Slicer.
- Slicer user Attila Nagy presented on Slicer3 for inner ear imaging (Slides - Hungarian)
- Attila also provided patches to build Slicer3 and most of Slicer2 using the latest versions of Solaris and the optimized Sun C++ compilers.
August
- August 14: NCBC 2008 Science Fair "Three ways of using the NA-MIC Kit"
- August 15: NCI Workshop
July
- Airway Inspector is a powerful tool for lung image analysis build on slicer2. A port to slicer3 is getting under way in the next few weeks and is expected to take about 6 months.
- Slicer and the NA-MIC software environment were presented as part of the UCLA Institute for Pure and Applied Mathematics Summer School on Mathematics and Brain Imaging.
- A very productive working meeting between researchers at BWH and Yale resulted in successful connection of Slicer3 to the BrainLab commercial image guided neurosurgery system.
June
- June 16-17: Training Event in Germany
- June 23-27: NA-MIC Summer Project Week
May
- Slicer 3.2 release
- Slicer3 included in review paper on "Rapid Development of Medical Imaging Tools with Open Source Libraries"
April
- Slicer rated in the top 2% of project teams in Ohloh
- April 14: Slicer 3 User and Developer Workshop, UNC Chapel Hill
March
- A new 3D Slicer Wikipedia entry has been created.
February
- February 20: Spring 2008 Slicer3 User Training Workshop in the SPL at 1249 Boylston St. Boston.
January
- Wishlist for tutorials
- Lots of Slicer development activity as part of the NA-MIC All Hands Meeting and the Winter Project Week
2007
December
- A three-day retreat for Slicer in Image Guided Therapy was held in Boston.
November
- New builds are now available for Linux 64, Linux 32, Windows, Darwin PPC, and Darwin x86
June
- Lots of Slicer3 work at the NA-MIC Summer Project Week
March
- New Image Guided Therapy (IGT) functionality for tracking surgical instruments added by developers working at the National Center for Image Guided Therapy.
February
- February 7-8: Slicer3 Mini-Retreat, Boston
- Resulted in the implementation of a Python interface to Slicer3.
January
- Slicer3 developers are getting together in Salt Lake City for a "programming half-week" as part of the NA-MIC All-Hands Meeting
- Lots of new developer documentation added!
- Slicer3 beta released
- New bug tracker installed
2006
December
- There was a big meltdown of the na-mic.org server in December, and some things were lost including wiki history, slicer3 bug tracker and doxygen, and some of the older download files. Please bear with us as we pick ourselves up and carry on.
November
- Slicer3 Alpha builds available for Linux (32 and 64 bit) and windows!
October
- Slicer3 development version shown at the BIRN All Hands Meeting as the platform for the BIRN Query Atlas Project and overall visualization issue in BIRN. See these slides for more information.
September
- September 19-20: Development meeting at BWH.
July
- There was active development of Slicer3 at and around the NA-MIC Summer Project Week.
- New Slicer3 wiki page organization is under way. Please send feedback to the slicer-developers mailing list.
For Wiki Administration
- Wiki Editing Guide
- WikiCheatSheet
- Create user account
- Users List
- https://www.slicer.org/index.html can be updated by submitting a Pull Request to https://github.com/Slicer/slicer.org. Wiki web pages are updated on-wiki by registered users.
