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andreped authored Mar 8, 2023
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# FastPathology Digital Slide Archive FP-DSA extension
# FastPathology Digital Slide Archive (FP-DSA) extension

**DISCLAIMER:** This is a work in progress. When I have the plugin properly working and stable, I will make a public docker image, and make a release here.

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</p>


## Features
## 🎊 Features

The software is still in continuous development, but some key features have been added such as:

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* Store predictions in database, access, download, and modify these through the UI


## Requirements
## 🐳 Requirements

DSA needs to be installed. Follow the instructions [here](https://github.com/DigitalSlideArchive/digital_slide_archive/tree/master/devops/dsa) on how to do so.

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```


## Installation
## 💻 Installation

Clone the repository:
```
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To add the plugin to DSA, choose `Upload new Task` under Slicer CLI Web Tasks in the DSA web UI. The plugin can then be used from the Analysis Page.


## Acknowledgements
## 👏 Acknowledgements

The core was built based on [pyFAST](https://github.com/smistad/FAST), and the plugin was inspired by the plugins made for [MONAILabel](https://github.com/Project-MONAI/MONAILabel/tree/main/plugins/dsa) and [HistomicsTK](https://github.com/DigitalSlideArchive/HistomicsTK/tree/master/histomicstk/cli). Conversion of pyFAST's pyramidal TIFF annotations to HistomicsTK's JSON annotations was enabled using [OpenCV](https://github.com/opencv/opencv).

The plugin was made for the [Digital Slide Archive](https://github.com/DigitalSlideArchive/digital_slide_archive) which have developed an open and extremely robust and user-friendly archive web solution for large microscopy images. Building our methods on top of DSA was done with ease and credit to the developers such as [manthey](https://github.com/manthey) and [dgutman](https://github.com/dgutman) for addressing any issue and concerns we had at impressive speed!


## License
## License

The plugin has [MIT-License](https://github.com/andreped/FP-dsa-plugin/blob/main/LICENSE).

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