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21 changes: 8 additions & 13 deletions README.md
Original file line number Diff line number Diff line change
@@ -1,25 +1,20 @@

# Fractal Web Client

<p align="center">
<img src="https://github.com/user-attachments/assets/984e89fe-b536-4414-8949-58029056e53c" alt="Fractal web" width="400">
</p>

[Fractal](https://fractal-analytics-platform.github.io/) is a framework developed at the [BioVisionCenter](https://www.biovisioncenter.uzh.ch/en.html) to process bioimaging data at scale in the OME-Zarr format and prepare the images for interactive visualization.

![Fractal_overview](https://github.com/user-attachments/assets/fb69b6e1-518f-4df0-a9b0-11bc1ae49d78)
![Fractal_overview](https://github.com/user-attachments/assets/666c8797-2594-4b8e-b1d2-b43fca66d1df)

This is the repository that contains the **Fractal web client**. Find more information about Fractal in general and the other repositories at the [Fractal home page](https://fractal-analytics-platform.github.io).

Documentation for `fractal-web` is available at https://fractal-analytics-platform.github.io/fractal-web.

## License and contributors

Unless otherwise stated in each individual module, all Fractal components are
released according to a BSD 3-Clause License, and Copyright is with Friedrich
Miescher Institute for Biomedical Research and University of Zurich.

Fractal was conceived in the Liberali Lab at the Friedrich Miescher Institute
for Biomedical Research and in the Pelkmans Lab at the University of Zurich by
[@jluethi](https://github.com/jluethi) and
[@gusqgm](https://github.com/gusqgm). The Fractal project is now developed at
the [BioVisionCenter](https://www.biovisioncenter.uzh.ch/en.html) at the
University of Zurich and the project lead is with
[@jluethi](https://github.com/jluethi). The core development is done under
contract by [eXact lab S.r.l.](https://www.exact-lab.it/).
Fractal was conceived in the Liberali Lab at the Friedrich Miescher Institute for Biomedical Research and in the Pelkmans Lab at the University of Zurich by [@jluethi](https://github.com/jluethi) and [@gusqgm](https://github.com/gusqgm). The Fractal project is now developed at the [BioVisionCenter](https://www.biovisioncenter.uzh.ch/en.html) at the University of Zurich and the project lead is with [@jluethi](https://github.com/jluethi). The core development is done under contract by [eXact lab S.r.l.](https://www.exact-lab.it).

Unless otherwise specified, Fractal components are released under the BSD 3-Clause License, and copyright is with the BioVisionCenter at the University of Zurich.
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23 changes: 8 additions & 15 deletions docs/index.md
Original file line number Diff line number Diff line change
Expand Up @@ -3,11 +3,13 @@

## Fractal

Fractal is a framework to process high-content imaging data at scale and prepare it for interactive visualization.
<p align="center">
<img src="https://github.com/user-attachments/assets/984e89fe-b536-4414-8949-58029056e53c" alt="Fractal web" width="400">
</p>

![Fractal_Overview](https://fractal-analytics-platform.github.io/assets/fractal_overview.jpg)
Fractal is a framework developed at the [BioVisionCenter](https://www.biovisioncenter.uzh.ch/en.html) to process bioimaging data at scale in the OME-Zarr format and prepare the images for interactive visualization.

Fractal provides distributed workflows that convert TBs of image data into OME-Zarr files. The platform then processes the 3D image data by applying tasks like illumination correction, maximum intensity projection, 3D segmentation using [cellpose](https://cellpose.readthedocs.io/en/latest/) and measurements using [napari workflows](https://github.com/haesleinhuepf/napari-workflows). The pyramidal OME-Zarr files enable interactive visualization in the napari viewer.
![Fractal overview](https://github.com/user-attachments/assets/666c8797-2594-4b8e-b1d2-b43fca66d1df)

This is the repository that contains the **Fractal web client**. Find more information about Fractal in general and the other repositories at the [Fractal home page](https://fractal-analytics-platform.github.io).

Expand All @@ -20,15 +22,6 @@ Find more details in specific pages.

## License and contributors

Unless otherwise stated in each individual module, all Fractal components are
released according to a BSD 3-Clause License, and Copyright is with Friedrich
Miescher Institute for Biomedical Research and University of Zurich.

Fractal was conceived in the Liberali Lab at the Friedrich Miescher Institute
for Biomedical Research and in the Pelkmans Lab at the University of Zurich by
[@jluethi](https://github.com/jluethi) and
[@gusqgm](https://github.com/gusqgm). The Fractal project is now developed at
the [BioVisionCenter](https://www.biovisioncenter.uzh.ch/en.html) at the
University of Zurich and the project lead is with
[@jluethi](https://github.com/jluethi). The core development is done under
contract by [eXact lab S.r.l.](https://www.exact-lab.it/).
Fractal was conceived in the Liberali Lab at the Friedrich Miescher Institute for Biomedical Research and in the Pelkmans Lab at the University of Zurich by [@jluethi](https://github.com/jluethi) and [@gusqgm](https://github.com/gusqgm). The Fractal project is now developed at the [BioVisionCenter](https://www.biovisioncenter.uzh.ch/en.html) at the University of Zurich and the project lead is with [@jluethi](https://github.com/jluethi). The core development is done under contract by [eXact lab S.r.l.](https://www.exact-lab.it).

Unless otherwise specified, Fractal components are released under the BSD 3-Clause License, and copyright is with the BioVisionCenter at the University of Zurich.
4 changes: 4 additions & 0 deletions mkdocs.yml
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Expand Up @@ -21,6 +21,8 @@ markdown_extensions:

theme:
name: "material"
logo: 'assets/fractal_logo.png'
favicon: 'assets/fractal_favicon.png'
custom_dir: "docs/overrides"
features:
- content.code.annotate
Expand All @@ -42,6 +44,8 @@ theme:
name: Switch to light mode
icon:
repo: fontawesome/brands/github
navigation:
expand: true

nav:
- Home page: index.md
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