This code was created by Ruijie Cao and Prof. Peng Xi in Peking University for 3D super-resolution structure illumination microscopy reconstruction. We are devoted to make the SIM community open and constructive. And we will continue to improve the platform.
- We provide the pure source code of three platforms of Open-3DSIM, including MATLAB, Fiji, and Exe.
- The whole code files of three platforms can be downloaded from tags in this resposity.
- The test_data.zip in tags provide three input format examples of OMX, N-SIM, and home-built 3DSIM systems.
- For more samples, please download from Figshare: https://figshare.com/articles/dataset/Open_3DSIM_DATA/21731315.
- Each version contains a detailed user guide.
- We also provide a video to guide users to install the Fiji version (on the above Fishare link) in Install_Fiji_Screenshot.mp4.
Licence
We claim an Apache licence for Open-3DSIM.
Reference
If you use one of the material provided within Open-3DSIM such as data or code, please cite our paper:
Cao R, Li Y, Chen X, et al. Open-3DSIM: an Open-source three-dimensional structured illumination microscopy reconstruction platform[J]. Nature Methods: 1-4 (2023).
https://www.nature.com/articles/s41592-023-01958-0
Contact us
For any questions, please contact caoruijie@stu.pku.edu.cn or xipeng@pku.edu.cn.
Updates:
2023.12.06 Someone reflects that Open-3DSIM(Fiji v2.2) has a bug on the step of "Process data". We have correct it.
2023.06.28 We added the reconstruction of single-layer 3DSIM in version 2.2.