A Data Analysis Center (DAC) is a tool or website which provides additional capabilities for downloading, visualizing or analyzing TCIA data by connecting to our TCIA Programmatic Interface (REST API) or by mirroring our Collections. Learn more about how DACs make it easier to work with our datasets in this presentation.
If you have developed something which meets the DAC criteria please contact the helpdesk so we can add it to this page. We will also work with you to ensure your site/tool provides adequate attributions and links back to TCIA to comply with our Data Usage Policies and Restrictions.
|Resource||Description||Functionality||TCIA Data Access||Platform|
|3D Slicer TCIA Browser extension||3D Slicer (http://slicer.org) is a free and open source platform for medical image visualization and quantitative analysis. The TCIA Browser extension of 3D Slicer enables integration of the versatile visualization and computing tools of 3D Slicer with unique data resources of TCIA. Among other capabilities, 3D Slicer enables 2-, 3-, and 4-d visualization tools, DICOM interoperability for both images and image annotations, radiomics feature calculation, multi-modality fusion and deformable registration, a collection of segmentation tools, Matlab and python interface, and integration of such libraries as ITK, VTK, DCMTK and numpy.||Visualization and Analysis||API||Windows, Mac OS, Linux|
|CancerImagingArchive.jl||Julia interface for exploring and downloading data on The Cancer Imaging Archive (TCIA)||Data access||API||Windows, Mac OS, Linux|
|Childhood Cancer Data Catalog||A searchable database of pediatric data resources, sharing clinical care and research data generated by the pediatric cancer research community. The site includes entries for all of TCIA's pediatric datasets.||Data access||Catalog||Web application|
|ChimeraX||UCSF ChimeraX is the next-generation molecular and medical image visualization program from the Resource for Biocomputing, Visualization, and Informatics (RBVI), following UCSF Chimera. ChimeraX can be downloaded free of charge for academic, government, nonprofit, and personal use. Data can be viewed on a graphical desktop or, on Windows, in VR. Documentation on how to access TCIA data directly from within ChimeraX can be found at https://www.rbvi.ucsf.edu/chimerax/docs/user/tools/downloaddicom.html.||Data access, Visualization and Analysis||API||Windows, Mac OS, Linux|
|Clara Train for TCIA Datasets||Clara Train is NVIDIA’s domain-optimized application-development framework for medical-imaging researchers and artificial intelligence (AI) developers. Clara Train SDK, which you deploy in a highly available (HA) configuration on the AWS Cloud, includes an AI Assisted Annotation developer toolkit that can be integrated into existing medical viewers, accelerating the creation of AI-ready, annotated medical-imaging datasets. Clara Train also provides a TensorFlow-based training framework with domain-specific pretrained models that accelerate AI development with techniques like transfer learning, federated learning, and automated machine learning. Models trained with Clara Train are packaged as Medical Model Archives (MMARs), which provide a standardized format for training workflows and collaborations. A sample notebook has been created in order to easily import and pre-process TCIA data for analysis with Clara Train.||Data access, Visualization, and Analysis||API||Linux|
|Community Code Share on Github||If you've developed open source code you'd like to share with the community you can use Github's topic feature to make it discoverable by tagging it with "tcia-dac". Please note these tools are not directly supported by TCIA or its helpdesk.||Data access, Visualization, and Analysis||API / Mirrored||Miscellaneous|
|DataCite Commons||Each Collection TCIA publishes is issued a Digital Object Identifier (DOI) through DataCite. The DataCite Commons is a web search interface for the PID Graph, the graph formed by the collection of scholarly resources such as publications, datasets, people and research organizations, and their connections. The PID Graph uses persistent identifiers and GraphQL, with PIDs and metadata provided by DataCite, Crossref, ORCID, and others.||Data access||Mirrored||Web application|
|DataScope||An open source data exploration and visual analytic tool that uses a declarative grammar to author interactive dashboards. Using a series of JSON files that describe the data, we are able to fuse clinical, radiology and digital pathology data. The TCIA CPTAC Pathology Portal is powered by DataScope.||Data access, Visualization||API||Web application|
|ePAD||ePAD is a freely available quantitative imaging informatics platform, developed by the Rubin Lab at Stanford Medicine Radiology at Stanford University. Its built-in connection to our REST API allows TCIA data to be seemlessly imported into ePAD for analysis.||Visualization and Analysis||API||Web application|
|EuCanImage Catalog||EuCanImage is a research project funded by the European Commission, which is developing a European cancer imaging platform and new Artificial Intelligence solutions for oncology. The EuCanImage catalog ( https://molgenis.eibir-edc.org/#/) integrated all TCIA public collections as well as a rapidly growing number of EU data collections. Hence, it is now possible for researchers and developers to search through the EuCanImage catalog based in Europe and identify TCIA imaging collections based in the US. The EuCanImage catalog provides metadata summaries for each collection and links directly to TCIA download pages.||Data Access||Catalog||Web application|
|G-DOC Plus||The Georgetown Database of Cancer Plus other diseases (G-DOC Plus) is a precision medicine platform containing molecular and clinical data from thousands of patients and cell lines, along with tools for analysis and data visualization. It contains mirrored data from the BREAST-DIAGNOSIS collection.||Visualization and Analysis||Mirrored||Web application|
|Google Cloud Healthcare API||The Cloud Healthcare API provides access to TCIA datasets via Google Cloud Platform (GCP) from Cloud Storage, BigQuery, or using the Cloud Healthcare API as described in GCP data access.||Data Access||Mirrored||Web application|
|MONAI||MONAI (https://monai.io) is a freely available, community-supported, PyTorch-based framework for deep learning in healthcare imaging. It provides deep learning capabilities tailored for healthcare imaging research, development, and deployment. MONAI is part of the larger Project MONAI effort, that includes MONAI Label for AI assisted annotation; MONAI Deploy for packaging, distributing, and deploying MONAI-based applications; and MONAI Tutorials which contains extensive educational and community building resources. MONAI's TCIA Dataset Tutorial describes how patient data (images, lab results, etc.) from NCI repositories such as the IDC and TCIA can be leveraged for MONAI model development and deployment. MONAI is available on cloud services such as Google CoLab and Amazon Sagemaker and across every major operating system and Python version via pip. MONAI Label is also available as a 3D Slicer Plugin.||Data access, Visualization, and Analysis||API||Windows, Mac OS, Linux|
|NCI Imaging Data Commons||NCI Imaging Data Commons (IDC) is a cloud-based resource within NCI Cancer Research Data Commons (CRDC) that connects researchers with cancer imaging datasets, resources for exploring those datasets and identifying relevant cohorts, and other components of CRDC that will host additional data types and support computation on the defined cohorts.||Visualization and Analysis||Mirrored||Cloud-based platform|
|Oncora Medical TCIA boostrapper||Repository with minimal docker compose configuration and script to create a DICOM server with a TCIA collection locally. Can be extended modularly with additional docker images for deep learning experiments.||Data Access||API||Windows, Mac OS, Linux|
|Orthanc TCIA Plugin|
This plugin extends Orthanc with a Web interface that can be used to import open-data medical images from The Cancer Imaging Archive (TCIA), and serve them immediately using Orthanc.
|Data Access||API / Mirrored||Windows, Mac OS, Linux|
|prostatecancer.ai||Tesseract-MedicalImaging (Tesseract-MI) is an open-source, web-based platform which enables deployment of AI models while simultaneously providing standard image viewing and reporting schemes. The goal of Tesseract-MI is to augment 3D medical imaging and provide a 4th dimension (AI) when requested by a user. As a case study, we demonstrate the utility of our platform and present ProstateCancer.ai (see also: https://github.com/Tesseract-MI/prostatecancer.ai), a web application which uses data from SPIE-AAPM-NCI PROSTATEx Challenges (PROSTATEx) for identification of clinically significant prostate cancer in MRI. The user can put the AI-assisted probe at any location on the images to see the result of the AI prediction for that specific location. For the reporting, the user can utilize the PI-RADS v2 interface which is provided. All the user's annotations will be saved in a database for further analysis.||Visualization and Analysis||Mirrored||Web application|
|pylidc||Visualization and Analysis||N/A||Windows, Mac OS, Linux|
|Semantic Search Cohort Builder||An interactive Cancer Imaging Archive Semantic Search Cohort Builder web application.||Data Access, Visualization, Analysis||N/A||Web application|
|Seven Bridges Cancer Genomics Cloud (CGC)||An NCI-funded platform that is available to any non-commercial researcher for cloud-based data access and analysis. Through the CGC, users can access petabytes of public data, including select collections from TCIA, as well as hundreds of bioinformatic tools and workflows for scalable, cost-effective analysis in the cloud alongside their own data.||Data Access, Visualization, Analysis||Mirrored||Web application|
This PyPI package contains functions to simplify common tasks one might perform when interacting with The Cancer Imaging Archive (TCIA) APIs via Jupyter/Python.
|Data Access||API||Windows, Mac OS, Linux|
A user-friendly R client for the TCIA REST API
|Data access||API||Windows, Mac OS, Linux|
|TCIA-Python3-Downloader||A python3 client designed to provide users of The Cancer Imaging Archive with the ability to easily interact and download data from the TCIA Programmatic Interface (REST API).||Data Access||API||Windows, Mac OS, Linux|
Zegami helps easily find patterns, outliers and trends in large, curated image data sets, and uncover bias, overfitting and misclassifications in machine learning models, to assist with providing explainability of your Machine Learning models.
Our scalable, cloud-based platform is powered by an image rendering engine and based on gaming technology. It can display tens of thousands of images (static or dynamic) over low bandwidth connections, and supports a wide variety of image and video formats .
Our solution helps with:
Check this publicly available demo using the Curated Breast Imaging Subset of Digital Database for Screening Mammography (CBIS-DDSM) dataset sourced from TCIA: https://zegami.com/demo/dicom-mammograms/
|Visualization, Analysis||Mirrored||Web application|