Project-MONAI / Project-MONAI/MONAI
Detection model in the model zoo, does not support datasets with no nodules
Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 8.7k
- Forks
- 1.6k
- Avg merge
- 5d 1h
- Merged PRs (30d)
- 20
Description
Hello
The Monai bundles are convenient to use because all the config for traning, transforms etc are specifyable easily as JSON and we are fortunate to have such a turnkey way of training the detection pipeline. The reference Lung Nodule detection, which is really the only detection in the model zoo, does not support datasets with no nodules, which would be a very odd thing to do in the medical field, because one would expect several healthy patients with no lung nodule. A medical detection network that is trained only on diseased samples is flawed right in its data input distribution. I am guessing that something like StandardizeEmptyBoxd needs to be added to the _transforms section of the lung_nodule_ct_detection/configs/train.json of the model zoo https://github.com/Project-MONAI/model-zoo/releases/download/hosting_storage_v1/lung_nodule_ct_detection_v0.5.9.zip. Any guidance would be appreciated.
Thanks
Rajesh
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start with lung_nodule_ct_detection/configs/train.json from the model-zoo archive and inspect the _transforms section, including the suggested StandardizeEmptyBoxd transform. Check how the detection training pipeline handles samples with no nodules; done means datasets containing healthy patients can train without failing or being treated as invalid.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python, pytorch
- Domain
- machine-learning
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100