Update README & docs with logo

.gitignore

@@ -17,3 +17,4 @@ fractal.log
 site
 reference
 venv
+.DS_Store

README.md

@@ -1,14 +1,18 @@
 # Fractal Client
 
+<p align="center">
+  <img src="https://github.com/user-attachments/assets/e8aef41e-b177-4f34-8681-8a5e756d6e38" alt="Fractal client" width="400">
+</p>
+
 [![PyPI version](https://img.shields.io/pypi/v/fractal-client?color=gree)](https://pypi.org/project/fractal-client/)
+[![License](https://img.shields.io/badge/License-BSD_3--Clause-blue.svg)](https://opensource.org/licenses/BSD-3-Clause)
 [![CI Status](https://github.com/fractal-analytics-platform/fractal-client/actions/workflows/ci.yml/badge.svg)](https://github.com/fractal-analytics-platform/fractal-client/actions/workflows/ci.yml)
 [![Coverage](https://raw.githubusercontent.com/fractal-analytics-platform/fractal-client/python-coverage-comment-action-data/badge.svg)](https://htmlpreview.github.io/?https://github.com/fractal-analytics-platform/fractal-client/blob/python-coverage-comment-action-data/htmlcov/index.html)
 [![Documentation Status](https://github.com/fractal-analytics-platform/fractal-client/actions/workflows/documentation.yaml/badge.svg)](https://fractal-analytics-platform.github.io/fractal-client)
-[![License](https://img.shields.io/badge/License-BSD_3--Clause-blue.svg)](https://opensource.org/licenses/BSD-3-Clause)
 
 [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/ba123898-3e15-4ae9-bdf7-1ee4d79050a1)
+![Fractal_overview](https://github.com/user-attachments/assets/666c8797-2594-4b8e-b1d2-b43fca66d1df)
 
 This is the repository that contains the **Fractal client**. Find more information about Fractal in general and the other repositories on the [Fractal home page](https://fractal-analytics-platform.github.io).
 
@@ -18,6 +22,6 @@ See https://fractal-analytics-platform.github.io/fractal-client.
 
 # Contributors and license
 
-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.

docs/index.md

@@ -5,12 +5,18 @@ hide:
 
 # Welcome to Fractal Command-line Client's documentation!
 
-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/e8aef41e-b177-4f34-8681-8a5e756d6e38" alt="Fractal client" width="400">
+</p>
 
-> This project is under active development 🔨. If you need help or found a bug, **open an issue [here](https://github.com/fractal-analytics-platform/fractal/issues/new)**.
+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-Zar](https://ngff.openmicroscopy.org) 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) and measurements using [napari workflows](https://github.com/haesleinhuepf/napari-workflows).
-The pyramidal OME-Zarr files enable interactive visualization in the napari viewer.
+> This project is under active development 🔨. If you need help or found a bug, **open an issue [here](https://github.com/fractal-analytics-platform/fractal/issues/new)**.
 
 This documentation concerns the **Fractal Command-line Client**. Find more information about Fractal in general and the other repositories at the [Fractal home page](https://fractal-analytics-platform.github.io).
+
+## Licence and Copyright
+
+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.

mkdocs.yml

@@ -18,6 +18,8 @@ markdown_extensions:
 
 theme:
   name: "material"
+  logo: 'assets/fractal_logo.png'
+  favicon: 'assets/fractal_favicon.png'
   custom_dir: "docs/overrides"
   features:
     - content.code.annotate
@@ -39,6 +41,8 @@ theme:
       name: Switch to light mode
   icon:
     repo: fontawesome/brands/github
+  navigation:
+    expand: true
 
 
 nav:
@@ -78,8 +82,7 @@ extra_css:
   - extra.css
 
 copyright: |
-  © Copyright 2022
-  Friedrich Miescher Institute for Biomedical Research and
+  © Copyright 2024
   University of Zurich
   (see <u><a href="https://github.com/fractal-analytics-platform/fractal/blob/main/LICENSE">
   LICENSE