Pinned Repositories
alview
Alview : Alignment View for BAM files - a fast,portable tool for viewing short reads as native GUI program, command line or via webserver
annotation-and-image-markup
Annotation and Image Markup (AIM) is the first project to propose and create a standard means of adding information and knowledge to an image in a clinical environment, so that image content can be easily and automatically searched.
caadapter
caAdapter provides model mapping, data mapping and transformation services among data sources like HL7 and Regulatory Data Sets.
catissue-core
caTissue Suite is a modular, open-source, specimen inventory and tracking system.
clinical-trials-search
gdc-docs
Official repository for GDC User Guides in Markdown format
lexevs
The LexEVS Terminology Service.
lexevs-service
A CTS2 Framework Service Plugin based on LexEVS
national-biomedical-image-archive
The National Biomedical Imaging Archive (NBIA) is a free and open source service and software application that enables users to securely store, search, and download diagnostic medical images, providing a searchable national repository integrating in vivo cancer images with clinical and genomic data. Using role-based security, NBIA provides web-based access to de-identified DICOM images, image markup, annotations, and rich meta data.
pathway-interaction-database
The Pathway Interaction Database (PID) is software supporting the access and display of information about bio-molecular interactions and cellular processes assembled into signaling pathways.
National Cancer Informatics Program's Repositories
NCIP/cagrid-core
The caGrid core infrastructure project includes the caGrid core services and tooling, which enables the National Cancer Informatics Platform's interoperability strategy.
NCIP/common-security-module
The Common Security Module (CSM) provides a comprehensive solution to common security objectives, with flexible delivery of security tools to allow application developers to integrate security with minimal coding effort. This helps eliminate the need for development teams to create their own security methodology. CSM provides solutions for authentication, authorization, and user provisioning.
NCIP/cadsr-cde-browser
The CDE Browser is the primary starting point for exploring the contents of the caDSR.
NCIP/cadsr-cdecurate
The CDE Curation Tool supports creation and editing of Data Element Concepts, Value Domains, and Data Elements.
NCIP/cagrid-docs
The caGrid-docs repository contains caGrid-related documentation, including Admin/Developer/User guides, design documents, and presentations.
NCIP/invivo-imaging-middleware
The In Vivo Imaging Middleware (IVIM) (better known as IVI Middleware) is a set of open source tools and middleware that provide interoperability between DICOM and the caGrid. IVIM development is driven by common use cases from radiology and pathology for common activities, such as central review in image-based clinical trials and data and application sharing in secure high-performance environments.
NCIP/ncip.github.com
This is the repository for the NCIP channel page. It hosts the wiki pages and the issue tracker related to the migration activity.
NCIP/cadsr-semantic-tools
The Semantic Integration Workbench (SIW) is a caCORE tool that assists users in adding consistent metadata to a UML model, or verifying consistency, by tagging their domain model with matching concepts from the NCI Thesaurus.
NCIP/catissue-print-service
The caTissue Print Service provides the framework for printing labels for specimens, specimen collection groups and containers from the caTissue application.
NCIP/cagrid2-wsrf
The caGrid2 project includes enhancements to the caGrid core services to support WS* and SHA2, which enables the National Cancer Informatics Platform's interoperability strategy.
NCIP/caintegrator-docs
This is the documentation repository for the caIntegrator project repository under the NCIP channel.
NCIP/catissue-advanced-query
The caTissue Advanced Query allows users to query any data in caTissue including complex conditions and associations.
NCIP/catissue-docs
The caTissue Docs repository holds the documentation related to the caTissue Core and other caTissue related projects.
NCIP/catissue-idp-authentication-manager
caTissue IDP Authentication Manager is an Open Source project used by caTissue Suite for IDP integration.
NCIP/caarray-docs
This is the documentation repository for caArray project that is under the NCIP channel.
NCIP/cadsr-admin-tool
The caDSR Administration Tool is the main administrative interface to all of the basic editing and maintenance features and components of caDSR tools.
NCIP/cadsr-api
The caDSR APIs allow developers to build an application to access caDSR metadata and search the database, or to retrieve caDSR Metadata to customize local data collection applications
NCIP/cadsr-cgmdr
cgMDR has tools enabling semantic annotation from its own metadata repository but also can resolve metadata and terminologies.
NCIP/cadsr-cgmdr-nci-uk
cgMDR has tools enabling semantic annotation from its own metadata repository but also can resolve metadata and terminologies.
NCIP/cadsr-formbuilder
caDSR Form Builder allows users to leverage Common Data Element (CDE) metadata to create forms that replicate the content of Case Report Forms (CRFs).
NCIP/cadsr-objectcart
The caDSR Object Cart application provides shopping cart-type operations for caDSR data objects.
NCIP/cadsr-util
caDSR Utils contains common utility libraries that are used by other caDSR related projects.
NCIP/cagrid
*NOTE* the entire caGrid repository was migrated to capture the total release history, including all branches. Please do not checkout and use this repository, instead use the relevant cagrid-* github project.
NCIP/catissue-test
The caTissue Test contains a set of utilities to query and get results from each configured caTissue instance.
NCIP/catissue-tools
The caTissue Tools contain several tools that integrate with the caTissue application.
NCIP/common-security-module-docs
This repository holds documents for the Common Security Module (CSM) project under the NCIP channel. See https://github.com/NCIP/common-security-module for further information.
NCIP/CURE
Software for "Collecting User Reported Experience" platform
NCIP/keyword-search
caTissue Suite uses Keyword Search to provide searching and indexing capabilities.
NCIP/stats-application-commons
The Stats Application Commons provides various utility functions such as mail server, scheduling, string manipulation, data download management, and caching functions.
NCIP/wustl-common-package
Wustl Common Package is used by the caTissue project.