diff --git a/README.md b/README.md index 83694fdd23ae3c923ca8cf3007ebfd124ac94de2..1e2e34d11fbe4ca5901bce8253630c05d1d6f4ce 100644 --- a/README.md +++ b/README.md @@ -13,7 +13,6 @@ tags: # `xvr`: X-ray to Volume Registration -[![Paper shield](https://img.shields.io/badge/arXiv-2503.16309-red.svg)](https://arxiv.org/abs/2503.16309) [![License: MIT](https://img.shields.io/badge/License-MIT-blue.svg)](LICENSE) Colab Hugging Face @@ -40,6 +39,49 @@ tags: ## Installation and Usage -This repository contains pretrained pose regression models to be run on public benchmarks datasets (reformatted into DICOM/NIfTI format) available [here](https://huggingface.co/datasets/eigenvivek/xvr-data/tree/main). +Refer to the [GitHub repository](https://github.com/eigenvivek/xvr) for detailed installation instructions, usage examples, and documentation on training, finetuning, and registration. -It also contains a foundation pose regression model (`wbct/model.pth`) intended to be quickly finetuned on new scans. Please refer to the [GitHub repository](https://github.com/eigenvivek/xvr) for detailed installation instructions, usage examples, and documentation on training, finetuning, and registration. + +## Experiments + +#### Models + +Pretrained models are available [here](https://huggingface.co/eigenvivek/xvr/tree/main). + +#### Data + +Benchmarks datasets, reformatted into DICOM/NIfTI files, are available [here](https://huggingface.co/datasets/eigenvivek/xvr-data/tree/main). + +If you use the [`DeepFluoro`](https://github.com/rg2/DeepFluoroLabeling-IPCAI2020) dataset, please cite: + + @article{grupp2020automatic, + title={Automatic annotation of hip anatomy in fluoroscopy for robust and efficient 2D/3D registration}, + author={Grupp, Robert B and Unberath, Mathias and Gao, Cong and Hegeman, Rachel A and Murphy, Ryan J and Alexander, Clayton P and Otake, Yoshito and McArthur, Benjamin A and Armand, Mehran and Taylor, Russell H}, + journal={International journal of computer assisted radiology and surgery}, + volume={15}, + pages={759--769}, + year={2020}, + publisher={Springer} + } + +If you use the [`Ljubljana`](https://lit.fe.uni-lj.si/en/research/resources/3D-2D-GS-CA/) dataset, please cite: + + @article{pernus20133d, + title={3D-2D registration of cerebral angiograms: A method and evaluation on clinical images}, + author={Mitrović, Uros˘ and S˘piclin, Z˘iga and Likar, Bos˘tjan and Pernus˘, Franjo}, + journal={IEEE transactions on medical imaging}, + volume={32}, + number={8}, + pages={1550--1563}, + year={2013}, + publisher={IEEE} + } + + +#### Logging + +We use `wandb` to log experiments. To use this feature, set the `WANDB_API_KEY` environment variable by adding the following line to your `.zshrc` or `.bashrc` file: + +```zsh +export WANDB_API_KEY=your_api_key +``` \ No newline at end of file diff --git a/deepfluoro/de_novo/subject01.pth b/deepfluoro/de_novo/subject01.pth deleted file mode 100644 index b25b168f9fdf82e4df524f4f6e3fe91fa505e27e..0000000000000000000000000000000000000000 --- a/deepfluoro/de_novo/subject01.pth +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:72a72e41a6f6fae52ef11b018409415ba7eb60e51b3e412baf79aad245b9f871 -size 85184931 diff --git a/deepfluoro/de_novo/subject02.pth b/deepfluoro/de_novo/subject02.pth deleted file mode 100644 index 4d4e1f97745fef6c7d235364c87386381377b9d3..0000000000000000000000000000000000000000 --- a/deepfluoro/de_novo/subject02.pth +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:c6717e1124a3fabaf04f2d6d6be0c11a213c568793242ba6ad3aa7a11fcb597a -size 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