Skip to content
Open
Changes from all commits
Commits
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
1 change: 1 addition & 0 deletions src/OM_Software.md
Original file line number Diff line number Diff line change
Expand Up @@ -64,6 +64,7 @@
| **Quantitative Phase Imaging Tools** | Various Tools to reconstruct brightfield images under varying illumination using inverse modeling and neural networks. Datasets. Lei Tian Lab. |[Website](https://sites.bu.edu/tianlab/open-source/), [GitHub](https://github.com/bu-cisl )
| **QuPath** | Open software platform especially for histopathology. |[Bankhead2017](https://doi.org/10.1038/s41598-017-17204-5), [GitHub](https://qupath.github.io/),
| **Ray-optics web app** | An open-source web application to simulate reflection and refraction of light. | [GitHub/Website](https://ricktu288.github.io/ray-optics/)
| **Scigantic** | OME-Zarr (NGFF) native platform for scientific data discovery, enabling cloud-based storage, sharing and exploration of large bioimaging datasets directly in the OME-Zarr format. | [Website](https://scigantic.com)
| **SMAP** | Open-source superresolution microscopy analysis platform. MATLAB-based tool with GUI to fit raw data, post-process and analyze SMLM data. Contains a powerful ROI manager and many other plugins, can be extended by own plugins (documentation available). Ries Lab. | [Ries2020](https://www.nature.com/articles/s41592-020-0938-1), [GitHub](https://github.com/jries/SMAP)
| **StarDist** | Nuclei segmentation. | [Weigert2019](http://arxiv.org/abs/1908.03636), [GitHub](https://github.com/stardist/stardist)
| **ThunderSTORM** |An open-source, interactive, and modular plug-in for ImageJ designed for automated processing, analysis, and visualization of data acquired by single molecule localization microscopy methods. |[Ovesný2014](https://doi.org/10.1093/bioinformatics/btu202), [GitHub](http://zitmen.github.io/thunderstorm/)
Expand Down