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XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD XNAT UTILITIES The XNAT Desktop Client is a stand-alone application built with Electron that works with the latest XNAT version to upload image session data with anonymization, and download image session data using a native xnat:// protocol to handle an XML download manifest. The desktop client includes the core functionality of the Upload
Assistant, plus
XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT - GET THE XNAT DESKTOP CLIENT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. XNAT DOCUMENTATION: XNAT 1.8.1 RELEASE NOTES XNAT 1.8.1 is a maintenance and bugfix release geared at addressing a few high-priority issues lingering from the 1.8.0 & 1.8.0.1 releases. While all upgrades should be tested against your existing customizations, this release does not introduce major plugin compatibility issues. XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools. XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD XNAT UTILITIES The XNAT Desktop Client is a stand-alone application built with Electron that works with the latest XNAT version to upload image session data with anonymization, and download image session data using a native xnat:// protocol to handle an XML download manifest. The desktop client includes the core functionality of the UploadAssistant, plus
XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT - GET THE XNAT DESKTOP CLIENT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. XNAT DOCUMENTATION: XNAT 1.8.1 RELEASE NOTES XNAT 1.8.1 is a maintenance and bugfix release geared at addressing a few high-priority issues lingering from the 1.8.0 & 1.8.0.1 releases. While all upgrades should be tested against your existing customizations, this release does not introduce major plugin compatibility issues. XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools.XNAT - ABOUT
XNAT is an open-source imaging informatics software platform dedicated to helping you perform imaging-based research. XNAT’s core functions manage importing, archiving, processing and securely distributing imaging and related study data. But its extended uses continue toevolve.
XNAT - GET THE XNAT DESKTOP CLIENT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License.XNAT ACADEMY
XNAT Academy courses are made up of short, engaging video lectures, screencast demonstrations of key functionality, quizzes and learning assessments, and practical exercises that let you develop your skills in an actual XNAT environment. XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT INSTALLATION GUIDE Configuring. XNAT 1.7 has a much lighter pre-installation configuration process than earlier versions of XNAT. You need to create a number of folders, including the folder to be used as xnat.home: Create the folder for xnat.home. If you create a dedicated HOMEPAGE - XNAT MARKETPLACEXNAT MARKETPLACE XNAT is an open source project produced by the NRG Lab at the Washington University School of Medicine. Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: WORKING WITH UI THEMES Working with UI Themes. The Themes feature in XNAT is usable but deprecated, and may not be fully supported in future releases. An XNAT Theme is a packaged set of front-end files that can customize the appearance of your XNAT UI. Similarly to plugins, themes can introduce or overwrite new CSS styles, images, javascript files, and pages.XNAT - CENTRAL
OASIS Longitudinal Studies. Project ID: CENTRAL_OASIS_LONG. The Open Access Series of Imaging Studies (OASIS) is a series of MRI data sets that is publicly available for study and analysis. The present data set consi . This is a public project. Request write access to thisproject.
LOGIN - CENTRAL
XNAT Central is a database for sharing neuroimaging and related data with select collaborators or the general community. You can upload images, view them, add demographic and clinical data, and much more. The data are all stored in a searchable, secure web accessibledatabase.
XNAT DOCUMENTATION: UNDERSTANDING USER ROLES AND PERMISSIONS Understanding User Roles and Permissions. By default, XNAT defines three common project roles: Owners , Members, and Collaborators. As a project owner, you have the ability to add specific users to your project within these roles. These users will then have the permissions associated with their defined role (which overrules the default XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD XNAT UTILITIES The XNAT Desktop Client is a stand-alone application built with Electron that works with the latest XNAT version to upload image session data with anonymization, and download image session data using a native xnat:// protocol to handle an XML download manifest. The desktop client includes the core functionality of the UploadAssistant, plus
XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. XNAT DOCUMENTATION: XNAT 1.8.1 RELEASE NOTES XNAT 1.8.1 is a maintenance and bugfix release geared at addressing a few high-priority issues lingering from the 1.8.0 & 1.8.0.1 releases. While all upgrades should be tested against your existing customizations, this release does not introduce major plugin compatibility issues. XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools. XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD XNAT UTILITIES The XNAT Desktop Client is a stand-alone application built with Electron that works with the latest XNAT version to upload image session data with anonymization, and download image session data using a native xnat:// protocol to handle an XML download manifest. The desktop client includes the core functionality of the UploadAssistant, plus
XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. XNAT DOCUMENTATION: XNAT 1.8.1 RELEASE NOTES XNAT 1.8.1 is a maintenance and bugfix release geared at addressing a few high-priority issues lingering from the 1.8.0 & 1.8.0.1 releases. While all upgrades should be tested against your existing customizations, this release does not introduce major plugin compatibility issues. XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools.XNAT - ABOUT
XNAT is an open-source imaging informatics software platform dedicated to helping you perform imaging-based research. XNAT’s core functions manage importing, archiving, processing and securely distributing imaging and related study data. But its extended uses continue toevolve.
XNAT - GET THE XNAT DESKTOP CLIENT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: UNDERSTANDING THE COMPONENTS OF XNAT XNAT File System Structure. During XNAT Installation, a series of file system paths are set up on Tomcat and owned by the system user (here named xnat).This documentation describes the typical set of paths, though it is possible to use alternate paths as needed. XNAT INSTALLATION GUIDE Configuring. XNAT 1.7 has a much lighter pre-installation configuration process than earlier versions of XNAT. You need to create a number of folders, including the folder to be used as xnat.home: Create the folder for xnat.home. If you create a dedicated HOMEPAGE - XNAT MARKETPLACEXNAT MARKETPLACE XNAT is an open source project produced by the NRG Lab at the Washington University School of Medicine. Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: WORKING WITH UI THEMES Working with UI Themes. The Themes feature in XNAT is usable but deprecated, and may not be fully supported in future releases. An XNAT Theme is a packaged set of front-end files that can customize the appearance of your XNAT UI. Similarly to plugins, themes can introduce or overwrite new CSS styles, images, javascript files, and pages.XNAT - CENTRAL
OASIS Longitudinal Studies. Project ID: CENTRAL_OASIS_LONG. The Open Access Series of Imaging Studies (OASIS) is a series of MRI data sets that is publicly available for study and analysis. The present data set consi . This is a public project. Request write access to thisproject.
LOGIN - CENTRAL
XNAT Central is a database for sharing neuroimaging and related data with select collaborators or the general community. You can upload images, view them, add demographic and clinical data, and much more. The data are all stored in a searchable, secure web accessibledatabase.
XNAT DOCUMENTATION: UNDERSTANDING USER ROLES AND PERMISSIONS Understanding User Roles and Permissions. By default, XNAT defines three common project roles: Owners , Members, and Collaborators. As a project owner, you have the ability to add specific users to your project within these roles. These users will then have the permissions associated with their defined role (which overrules the default XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
XNAT DOCUMENTATION: XNAT SETUP XNAT Setup - First Time Configuration. Instead of dealing with properties files on the file system prior to installation, all basic configuration settings are now available through the UI. To initialize a new XNAT installation: Go to your XNAT by entering the site URL in your browser. Log in with the username admin and password admin. XNAT DOCUMENTATION: CONFIGURING THE PIPELINE ENGINE Pipeline Engine is a Java-based framework that links sequential activities, human and computer, into a defined process flow and manages how data moves from step XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools. INSTALLING THE XNAT ML DOCKER-COMPOSE RELEASE The distribution of XNAT ML in a Docker Compose setup includes all core components of the demonstration release. XNAT runs in a Docker container, with Traefik set up to handle front-end routing to temporary model training containers. XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
XNAT DOCUMENTATION: XNAT SETUP XNAT Setup - First Time Configuration. Instead of dealing with properties files on the file system prior to installation, all basic configuration settings are now available through the UI. To initialize a new XNAT installation: Go to your XNAT by entering the site URL in your browser. Log in with the username admin and password admin. XNAT DOCUMENTATION: CONFIGURING THE PIPELINE ENGINE Pipeline Engine is a Java-based framework that links sequential activities, human and computer, into a defined process flow and manages how data moves from step XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools. INSTALLING THE XNAT ML DOCKER-COMPOSE RELEASE The distribution of XNAT ML in a Docker Compose setup includes all core components of the demonstration release. XNAT runs in a Docker container, with Traefik set up to handle front-end routing to temporary model training containers. XNAT - GET THE XNAT DESKTOP CLIENT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: UNDERSTANDING THE COMPONENTS OF XNAT XNAT File System Structure. During XNAT Installation, a series of file system paths are set up on Tomcat and owned by the system user (here named xnat).This documentation describes the typical set of paths, though it is possible to use alternate paths as needed. XNAT DOCUMENTATION: THE XNAT API With the release of XNAT 1.7, a second API standard has been added, and will become the default for all new development. This is known as the XAPI. Swagger documentation for XAPI functions, as well as a live console for performing XAPI commands, is available inside your XNAT webapp at Administer > Site Administration > Miscellaneous > SwaggerPage.
XNAT DOCUMENTATION: XNAT SETUP XNAT Setup - First Time Configuration. Instead of dealing with properties files on the file system prior to installation, all basic configuration settings are now available through the UI. To initialize a new XNAT installation: Go to your XNAT by entering the site URL in your browser. Log in with the username admin and password admin. XNAT - GET THE XNAT UPLOAD ASSISTANT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: USER REGISTRATION AND ACCOUNTS IN XNAT In a standard XNAT installation, user accounts must be created by either the user themselves or by the site administrator. Users will be given the option of registering for an account when they first visit the site. The User Registration form collects the necessary data for the creation of your account including First & Last Name, Email, and XNAT DOCUMENTATION: CONFIGURING THE PIPELINE ENGINE Pipeline Engine is a Java-based framework that links sequential activities, human and computer, into a defined process flow and manages how data moves from step XNAT DOCUMENTATION: XNAT 1.8.1 RELEASE NOTES XNAT 1.8.1 is a maintenance and bugfix release geared at addressing a few high-priority issues lingering from the 1.8.0 & 1.8.0.1 releases. While all upgrades should be tested against your existing customizations, this release does not introduce major plugin compatibility issues.LOGIN - CENTRAL
XNAT Central is a database for sharing neuroimaging and related data with select collaborators or the general community. You can upload images, view them, add demographic and clinical data, and much more. The data are all stored in a searchable, secure web accessibledatabase.
XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD XNAT UTILITIES The XNAT Desktop Client is a stand-alone application built with Electron that works with the latest XNAT version to upload image session data with anonymization, and download image session data using a native xnat:// protocol to handle an XML download manifest. The desktop client includes the core functionality of the UploadAssistant, plus
XNAT - GET THE XNAT DESKTOP CLIENTXNAT MRRCXNAT IUXNAT CLARAXNAT DEMOXNAT SERVERXNAT UPLOAD ASSISTANT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
XNAT DOCUMENTATION: IMAGE SESSION UPLOAD METHODS IN XNATSEE MORE ONWIKI.XNAT.ORG
XNAT TOOLS: DICOMBROWSER DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files to disk, or send them across a networkto
XNAT - HOMEABOUT XNATDOWNLOADDOCUMENTATIONNEWS & EVENTSXNAT MARKETPLACECONTACT US XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD XNAT UTILITIES The XNAT Desktop Client is a stand-alone application built with Electron that works with the latest XNAT version to upload image session data with anonymization, and download image session data using a native xnat:// protocol to handle an XML download manifest. The desktop client includes the core functionality of the UploadAssistant, plus
XNAT - GET THE XNAT DESKTOP CLIENTXNAT MRRCXNAT IUXNAT CLARAXNAT DEMOXNAT SERVERXNAT UPLOAD ASSISTANT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT - DOWNLOAD DICOM BROWSER Download DICOM Browser. DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files todisk, or send
XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: CONFIGURING AUTHENTICATION PROVIDERS To add an authentication provider, create a properties file and add it to your XNAT installation: SSH into your XNAT server and navigate to the config directory in your XNAT home folder. The default location for this is /data/xnat/home/config. If it doesn't already exist, create a new folder named auth. For the default settings, this wouldbe
DRAWING CONTOURS WITH THE XNAT OHIF VIEWER The OHIF viewer, integrated with XNAT, is used to segment and label regions in the image data. The Viewer is used to draw contours onimage slices.
XNAT DOCUMENTATION: USING THE RESOURCE FILE QUARANTINE Within the Quarantine panel, for each set of uploaded files to triage, a set of actions can be taken. Download - Downloads a ZIP archive of the set of files from the resource quarantine folder to your local hard drive so you can inspect them; Remove - Removes the selected upload from the resource quarantine, effectively cancelling the user'supload attempt
XNAT DOCUMENTATION: IMAGE SESSION UPLOAD METHODS IN XNATSEE MORE ONWIKI.XNAT.ORG
XNAT TOOLS: DICOMBROWSER DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files to disk, or send them across a networkto
XNAT - ABOUT
XNAT is an open-source imaging informatics software platform dedicated to helping you perform imaging-based research. XNAT’s core functions manage importing, archiving, processing and securely distributing imaging and related study data. But its extended uses continue toevolve.
XNAT - GET THE XNAT DESKTOP CLIENT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: INSTALLING PIPELINES IN XNAT To install a pipeline in XNAT, you need to get file system access and know where your PIPELINE_HOME directory is located.By default, this is located at /data/xnat/pipeline, but another location can be specified in the XNAT File System Settings in the Admin UI.. Pipelines will have three major components: the pipeline descriptor component, which contains XML definitions and scripts; the webapp XNAT DOCUMENTATION: UNDERSTANDING THE COMPONENTS OF XNAT XNAT File System Structure. During XNAT Installation, a series of file system paths are set up on Tomcat and owned by the system user (here named xnat).This documentation describes the typical set of paths, though it is possible to use alternate paths as needed. XNAT DOCUMENTATION: HOW TO UPGRADE XNAT Upgrading application. Upgrading XNAT to the latest release is a matter of replacing the XNAT war file: If Tomcat is running, shut it down. Back up your current XNAT installation, as specified above. Replace the existing XNAT war file with the upgraded version. XNAT DOCUMENTATION: HOME XNAT Tools. Sometimes a dedicated tool is the best fit for a particular job. Here are the ones custom-built for XNAT. XNAT - GET THE XNAT UPLOAD ASSISTANT XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License. XNAT DOCUMENTATION: XNAT 1.8.1 RELEASE NOTES XNAT 1.8.1 is a maintenance and bugfix release geared at addressing a few high-priority issues lingering from the 1.8.0 & 1.8.0.1 releases. While all upgrades should be tested against your existing customizations, this release does not introduce major plugin compatibility issues.LOGIN - CENTRAL
XNAT Central is a database for sharing neuroimaging and related data with select collaborators or the general community. You can upload images, view them, add demographic and clinical data, and much more. The data are all stored in a searchable, secure web accessibledatabase.
USING THE XNAT OHIF VIEWER Contouring Overview. A "Region of Interest" Contour (ROI Contour) is defined as a collection of 2D contours that make up a continuous volume. The Contours side panel displays a list of ROI Contours displayed on the scan in the active viewport, as well as some global settings for ROI Contour tools. open source imaging informatics* About XNAT
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About XNAT | Case Studies | DOWNLOAD WHAT DOES XNAT PROVIDE?*
FULL DICOM INTEGRATION AND ANONYMIZATION: Get image data in, and keepPHI out.
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SECURE ACCESS & PERMISSION CONTROL: You decide who does what with yourdata.
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INTEGRATED SEARCH & REPORTING: Report on your image and clinical datatogether.
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PIPELINE PROCESSING: Use the power of high-performance computing onyour data.
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MODULAR EXTENSIBILITY: Expand the capabilities of your XNAT to meetyour needs.
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DEVELOPER COMMUNITY: Benefit from an active and engaged set of XNATpower users.
XNAT is an open source project produced by NRG at the Washington University School of Medicine | NRG Home Contributions to the XNAT Documentation site are licensed under a Creative Commons Attribution 3.0 Unported License.
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ABOUT XNAT
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DOCUMENTATION
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* Institutional Repositories* Clinical Research
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