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Visceral.eu

Task Description

In this challenge, a set of annotated medical imaging data is provided to the participants, along with a powerful complimentary cloud-computing instance (8-core CPU with 16GB RAM) where participant algorithms can be developed and evaluated. The available data contains segmentation of several different anatomical structures in different image modalities, e.g. CT and MRI. The participants, however, do NOT have to address all the tasks involved in such data, but rather they can attempt any sub-problem thereof. For instance, an algorithm that can segment all organs in all the modalities will be evaluated in those given categories for which it outputs any results.

How to participate

• Register for a benchmark account at the VISCERAL registration website. Choose Anatomy 3 Benchmark and your choice of operating system (Linux, Windows, etc) for your virtual machine (VM).
• Download the data usage agreement, get it signed, and upload it to the participant dashboard.
• After signing the contract register or add yourself (if already registerd) to the VISCERAL.EU group on the VSD-SMIR.
• You can download the training dataset for offline training at the bottom of this page.

Please visit Visceral.eu website and read the complete instruction to submit your results

Training Dataset

Annotated structures found in the training data corpus:

Segmentations: 
left/right kidney, spleen, liver, left/right lung, urinary bladder, 
rectus abdominis muscle, 1st lumbar vertebra, pancreas, left/right psoas major muscle, 
gallbladder, sternum, aorta, trachea, left/right adrenal gland. 

Images

20 volumes each for 4 different image modalities and field-of-views, with and without contrast enhancement, which add up to 80 volumes in total.

Annotations

In each volume, up to 20 structures are segmented. The missing annotations are due to poor visibility of the structures in certain image modalities or due to such structures being outside the field-of-view. Accordingly, in all 80 volumes, a total of 1295 structures are segmented. A breakdown of annotations per anatomy can be seen in figures linked on the left.

Test Dataset and Evaluation

Note that the test data will NOT be accessible directly by the participants. Instead, the participants provide us with their compiled annotation executable that can be called in a pre-defined manner to produce results for any input image. The organizers will use those in the VM environment to annotate/evaluate a large set of medical testing images.

Organizers

• The Anatomy3 challenge is organized by Orcun Goksel together with the VISCERAL Consortium.
• To keep up to date with the latest news on VISCERAL benchmarks, subscribe to the VISCERAL mailing list.

Register & Download

• Select the VISCERAL.EU Research Unit during registration.
• If you already have an account, go to MySMIR/GroupAdministration and apply to the VISCERAL.EU group