Class by https://github.com/brianmanderson to run multiple models with Tensorflow (>2) on a workstation or DGX server.
| Model Name | Author | Version | Description |
|---|---|---|---|
| Create_Liver_BMA | BMAnderson | _BMA_Program_4 | Liver |
| Create_Liver_Disease_Ablation_BMA | BMAnderson | _BMA_Program_0 | Liver_Disease_Ablation |
| Create_Liver_Lobe_Segments_BMA | BMAnderson | _BMAProgram3 | Liver_Segment_1, Liver_Segment_2, Liver_Segment_3, Liver_Segment_4, Liver_Segment_5-8 |
| Create_Lung_BMA | BMAnderson | _BMA_Program_2 | Ground Glass, Lung |
| Create_LACC_MorfeusLab / AIP_LACC_AI_contours | BRigaud | _MorfeusLab_v4 | Bladder, Rectum, Sigmoid, Vagina, Parametrium, Femur_Head_R, Femur_Head_L, Kidney_R, Kidney_L, SpinalCord, BowelSpace, Femoral Heads, Upper_Vagina_2.0cm, CTVp |
| AIP_LACC_3D_AI_contours | BRigaud | _MorfeusLab_v5 | Bladder, Rectum, Sigmoid, Vagina, Parametrium, Femur_Head_R, Femur_Head_L, Kidney_R, Kidney_L, SpinalCord, BowelSpace, Femoral Heads, Upper_Vagina_2.0cm, CTVp |
| AIP_LACC_AI_CTVN_contours | BRigaud | _MorfeusLab_v2 | CTVn, CTV_PAN, Nodal_CTV |
| AIP_LACC_AI_Duodenum_contours | BRigaud | _MorfeusLab_v2 | Duodenum |
| Create_Pancreas_DLv3_MorfeusLab_v0 | BRigaud | _MorfeusLab_v0 | Pancreas |
| Create_Cyst_HybridDLv3_MorfeusLab_v0 | BRigaud | _HybridDLv3_v0 | (need pancreas) Cyst |
| Create_Disease_Ablation_MorfeusLab_v0 | BRigaud | _MorfeusLab_v0 | Disease, Ablation |
| Create_PSMA_MorfeusLab | BRigaud | _MorfeusLab_v3 | (need femoral heads) Bladder, Rectum, Iliac Veins, Iliac Arteries |
| Create_PSMA_3D_MorfeusLab | BRigaud | _MorfeusLab_v4 | (need femoral heads) Bladder, Rectum, Iliac Veins, Iliac Arteries |
| Create_FemHeads_MorfeusLab | BRigaud | _MorfeusLab_v0 | Femoral Heads |
| Create_Liver_3D_MorfeusLab | BRigaud | _MorfeusLab_v0 | Liver |
| Create_Lung_GTV_MorfeusLab_v0 | BRigaud | _MorfeusLab_v0 | GTV (need Lungs contour or bounding box) |
This repository is expecting a folder with model per localization. Models are not distributed in that repository. This repository is using a "networks" private repository.
docker pull tensorflow/tensorflow:2.4.1-gpu
pip install -r requirements.txt
This repository was used in the following published manuscripts:
https://doi.org/10.1016/j.prro.2021.02.003 @article{anderson2021simple, title={Simple Python Module for Conversions Between DICOM Images and Radiation Therapy Structures, Masks, and Prediction Arrays}, author={Anderson, Brian M and Wahid, Kareem A and Brock, Kristy K}, journal={Practical radiation oncology}, volume={11}, number={3}, pages={226--229}, year={2021}, publisher={Elsevier} }
https://doi.org/10.1016/j.adro.2020.04.023 @article{anderson2021automated, title={Automated contouring of contrast and noncontrast computed tomography liver images with fully convolutional networks}, author={Anderson, Brian M and Lin, Ethan Y and Cardenas, Carlos E and Gress, Dustin A and Erwin, William D and Odisio, Bruno C and Koay, Eugene J and Brock, Kristy K}, journal={Advances in radiation oncology}, volume={6}, number={1}, pages={100464}, year={2021}, publisher={Elsevier} }
https://doi.org/10.1016/j.ijrobp.2020.10.038 @article{rigaud2021automatic, title={Automatic segmentation using deep learning to enable online dose optimization during adaptive radiation therapy of cervical cancer}, author={Rigaud, Bastien and Anderson, Brian M and Zhiqian, H Yu and Gobeli, Maxime and Cazoulat, Guillaume and S{"o}derberg, Jonas and Samuelsson, Elin and Lidberg, David and Ward, Christopher and Taku, Nicolette and others}, journal={International Journal of Radiation Oncology* Biology* Physics}, volume={109}, number={4}, pages={1096--1110}, year={2021}, publisher={Elsevier} }