Skip to content

Commit 614fe50

Browse files
Merge pull request #7 from ChristianHinge/main
Update public dataset policy and docs
2 parents c0b26aa + d820a98 commit 614fe50

4 files changed

Lines changed: 62 additions & 15 deletions

File tree

.gitignore

Lines changed: 1 addition & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -2,6 +2,7 @@
22
conversion/
33
CLAUDE.md
44
outputs*/
5+
docs_scripts/
56
*.nii.gz
67
# Created by https://www.toptal.com/developers/gitignore/api/visualstudiocode,python
78
# Edit at https://www.toptal.com/developers/gitignore?templates=visualstudiocode,python

README.md

Lines changed: 5 additions & 5 deletions
Original file line numberDiff line numberDiff line change
@@ -2,14 +2,14 @@
22

33
**Big Cross-Modal Attenuation Correction** — synthesize pseudo-CT from multi-modal PET/MRI input to enable CT-less PET reconstruction.
44

5-
[Challenge website](https://bic-mac-challenge.github.io/)
6-
7-
[Dataset](https://huggingface.co/datasets/DEPICT-RH/BIC-MAC)
8-
9-
[CodaBench submission & leaderboard](https://www.codabench.org/competitions/12555/)
5+
🏆 [Challenge website](https://bic-mac-challenge.github.io/)
6+
| 🗂️ [Dataset](https://huggingface.co/datasets/DEPICT-RH/BIC-MAC)
7+
| 🏆 [CodaBench submission & leaderboard](https://www.codabench.org/competitions/12555/)
108

119
---
10+
## Updates
1211

12+
- April 7, 2026: [NEW DATA POLICY] The use of public datasets for pretraining and other use-cases is now allowed under certain conditions. Please see [docs/rules.md](docs/rules.md) for details.
1313
## Table of Contents
1414

1515
- [Overview](#overview)

docs/rules.md

Lines changed: 9 additions & 9 deletions
Original file line numberDiff line numberDiff line change
@@ -6,17 +6,17 @@ This document describes the rules governing participation in the Big Cross-Modal
66

77
## Training Data and External Resources
88

9-
**No additional training data is allowed.** All algorithms must be trained solely on the provided BIC-MAC training set to ensure a level playing field between hospital-based and university-based teams. Pretrained networks are allowed under certain conditions (see below)
9+
**Additional training data is allowed.** as long as it was released, publicly available and accessible to all participants without restrictions prior the start of the challenge (April 1st). Private datasets are NOT allowed. The use of public datasets must be disclosed in the submitted methodology paper. Please see [tips-and-faq.md](tips-and-faq.md) for suggested public datasets. If you are unsure whether a particular dataset fulfills the above criteria, please send an email to bic-mac-challenge@outlook.com.
1010

11-
**Pretrained networks are allowed** if they were publicly available on GitHub, Zenodo, or a comparable platform *prior to the start of the challenge* (April 1st . You may use these as initialization, feature extractors or preprocessing, but the fine-tuning data must be limited to the provided dataset.
11+
**Pretrained networks are allowed** if they were publicly available and accessible to all participants without restructions (e.g. on GitHub, Huggingface, Zenodo, or a comparable platform) *prior to the start of the challenge* (April 1st) . You may use these as initialization, feature extractors or preprocessing, but the fine-tuning data must be limited to the provided dataset.
1212

13-
**Any preprocessing or augmentation of the provided data is allowed**, as long as it does not conflict with the Data User Agreement (see below).
13+
**Any preprocessing, manual labelling or augmentation of the BIC-MAC dataset and public datasets is allowed**, as long as it does not conflict with the other rules or the BIC-MAC Data User Agreement.
1414

1515
---
1616

1717
## Submission Limits
1818

19-
**Validation phase (CodaBench NIfTI upload):** up to 5 submissions per day per team.
19+
**Validation phase (CodaBench NIfTI upload):** up to 5 submissions per day per team. The validation phase starts May 15
2020

2121
**Dry-run (Docker container via email):** up to 2 submissions per month per team starting May 15. The organizers will verify that the container runs, respects hardware and time constraints, and produces correctly dimensioned output. The Dry-run is performed on the validation set.
2222

@@ -42,21 +42,21 @@ Your container must read from `/data/features/` (mounted read-only) and write `c
4242

4343
## Methodology Paper Requirement
4444

45-
Each team must prepare a short methodology paper describing the technical approach underlying their submission. This paper must be uploaded to a public repository (e.g., arXiv) and included with the final submission email alongside the Docker container. Submissions without an accompanying methodology paper will not be evaluated.
45+
Each team must prepare a short methodology paper describing the technical approach underlying their submission. This paper must be uploaded to a public repository (e.g., arXiv) and included with the final submission email alongside the Docker container.
4646

4747

4848
## Publication Embargo
4949

50-
Participating teams may publish their own results independently, subject to a **three-month embargo period** after the conclusion of MICCAI 2026. This embargo allows the organizers to publish the challenge summary paper first.
51-
52-
Up to four members from each of the top five performing teams will be invited as co-authors on the challenge summary paper. Teams may opt out of inclusion in the summary paper by notifying the organizing committee via email.
50+
Participating teams may publish their own results independently, subject to a **three-month embargo period** after the conclusion of MICCAI 2026. This embargo allows the organizers and the invited participant coauthers to publish the challenge summary paper first. Up to four members from each of the top five performing teams will be invited as co-authors on the challenge summary paper. Teams may opt out of inclusion in the summary paper by notifying the organizing committee via email.
5351

5452
---
5553

56-
## Ranking and Prizes
54+
## Metrics, Ranking, and Prizes
5755

5856
Performance is ranked using a rank-based aggregation across five evaluation metrics. Each metric is averaged across all test cases, submissions are ranked per metric (1 = best), and the final score is the mean of the five metric ranks. The lowest final score wins.
5957

58+
Please see [src/evaluation/README.md](src/evaluation/README.md) for definitions of each metric. Note that fifth metric, TAC-bias, cannot be computed locally. It is used only for the final evaluation.
59+
6060
In the event of a tied aggregated rank, teams share the corresponding placement following Olympic-style conventions (e.g., two first places, no second place, then third place). Prize money is split equally between tied teams.
6161

6262
**Prizes:** 1st place: €500 · 2nd place: €300 · 3rd place: €200

docs/tips-and-faq.md

Lines changed: 47 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -1 +1,47 @@
1-
WIP
1+
## Suggested public datasets
2+
3+
4+
### PET/CT
5+
> Note that all PET images in the following datasets are attenuation corrected (usually by the accompanying CT), which means that the PET may encode some of the CT information.
6+
- [Vienna QUADRA_HC](https://zenodo.org/records/16588733) 100 whole-body 18F-FDG PET/CT studies from 50 participants. Like BIC-MAC, the PET/CT is acquired on a Siemens Biograph Vision Quadra and the participants are healthy controls. [citation](https://www.nature.com/articles/s41597-025-05997-4)
7+
8+
- [AutoPET V](https://fdat.uni-tuebingen.de/records/0zs4c-89f12) 1014 whole-body 18F-FDG PET/CT studies, 597 PSMA PET/CT studies [citation](https://www.nature.com/articles/s41597-022-01718-3)
9+
10+
- [PETWB-REP](https://zenodo.org/records/18670487) 565 whole-body 18F-FDG PET/CT studies [citation](https://arxiv.org/pdf/2508.04062)
11+
12+
- [ENHANCE.PET](https://pubmed.ncbi.nlm.nih.gov/40799763/) 1,597 whole-body 18F-FDG PET/CT studies. Downloaded by running `moosez -dtd -dd path/to/download/` (install [moosez](https://github.com/ENHANCE-PET/MOOSE)) [citation](https://pmc.ncbi.nlm.nih.gov/articles/PMC12340901/#S1).
13+
14+
- [ViMED-PET](https://huggingface.co/datasets/dacthai2807/ViMed-PET) 2,757 whole-body 18F-FDG PET/CT studies. [citation](https://arxiv.org/abs/2509.24739v1)
15+
16+
- [Lung-PET-CT-Dx](https://www.cancerimagingarchive.net/collection/lung-pet-ct-dx/) 436 whole-body (no head) 18F-FDG PET/CT studies [citation](https://doi.org/10.7937/TCIA.2020.NNC2-0461)
17+
18+
### MRI/CT
19+
20+
- [SynthRAD2025](https://zenodo.org/records/14918089) 890 paired MRI–CT and 1,472 CBCT–CT sets covering head-and-neck, thorax, and abdomen from 5 European university medical centers. [citation](https://arxiv.org/abs/2502.17609)
21+
22+
- [CHAOS](https://zenodo.org/records/3431873) 40 abdominal CT and 40 abdominal MRI studies (T1-DUAL, T2-SPIR) from healthy subjects. CT and MRI are from **different** patients (unpaired). [citation](https://doi.org/10.1016/j.media.2020.101950)
23+
24+
- [Paired CT–MRI (T1+T2)](https://doi.org/10.1016/j.dib.2025.111768) Small co-registered CT and MRI (T1- and T2-weighted) dataset from the same patients. [citation](https://doi.org/10.1016/j.dib.2025.111768)
25+
26+
- [Learn2Reg Abdomen MR-CT](https://learn2reg.grand-challenge.org/Datasets/) 16 paired and 90 unpaired abdominal CT and MRI scans [citation](https://doi.org/10.1109/TMI.2022.3213983)
27+
28+
- [RIRE](https://rire.insight-journal.org/) ~20 brain patients with paired CT, T1, T2, and PD MRI with gold-standard marker-based registration transforms. [citation](https://rire.insight-journal.org/)
29+
30+
31+
### CT
32+
33+
- [NLST](https://www.cancerimagingarchive.net/collection/nlst/) ~26,000 low-dose chest CT studies. [citation](https://doi.org/10.7937/TCIA.HMQ8-J677)
34+
35+
- [CT-RATE](https://huggingface.co/datasets/ibrahimhamamci/CT-RATE) 47,149 chest CT volumes with paired radiology reports. [citation](https://huggingface.co/datasets/ibrahimhamamci/CT-RATE)
36+
37+
- [TotalSegmentator CT](https://zenodo.org/records/10047292) 1,228 whole-body CT studies with segmentations of 117 anatomical structures. [citation](https://doi.org/10.1148/ryai.230024)
38+
39+
- [AbdomenAtlas 1.0 Mini](https://huggingface.co/datasets/AbdomenAtlas/AbdomenAtlas1.0Mini) 5,195 abdominal CT studies with 9-organ segmentations. [citation](https://arxiv.org/abs/2305.09666)
40+
41+
### MRI
42+
- [TotalSegmentator MRI](https://zenodo.org/records/14710732) 616 whole-body MRI studies. [citation](https://doi.org/10.1148/ryai.230024)
43+
44+
- [FOMO-300K](https://huggingface.co/datasets/FOMO-MRI/FOMO300K) 81,282 brain MRI studies with a total of 306,303 scans. [citation](https://arxiv.org/abs/2506.14432)
45+
46+
### Chest X-ray (Topogram-like)
47+
- [CheXpert](https://stanfordmlgroup.github.io/competitions/chexpert/) 224,316 chest radiographs of 65,240 patients with 14 pathology labels. [citation](https://arxiv.org/abs/1901.07031)

0 commit comments

Comments
 (0)