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https://github.com/biapyx/biapy-gui

BiaPy GUI
https://github.com/biapyx/biapy-gui

Last synced: about 21 hours ago
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BiaPy GUI

Host: GitHub
URL: https://github.com/biapyx/biapy-gui
Owner: BiaPyX
License: mit
Created: 2023-06-22T11:11:49.000Z (over 1 year ago)
Default Branch: main
Last Pushed: 2024-05-23T08:16:32.000Z (6 months ago)
Last Synced: 2024-05-23T08:58:09.139Z (6 months ago)
Language: Python
Size: 133 MB
Stars: 6
Watchers: 2
Forks: 0
Open Issues: 2
Metadata Files:
- Readme: README.md
- License: LICENSE.md

Awesome Lists containing this project

README

        # Graphical user interface for BiaPy: Bioimage analysis pipelines in Python

![BiaPy GUI](https://raw.githubusercontent.com/BiaPyX/BiaPy/master/img/BiaPy_GUI_main_page.png)

## Download BiaPy GUI for you OS

- [Windows 64-bit](https://drive.google.com/uc?export=download&id=1iV0wzdFhpCpBCBgsameGyT3iFyQ6av5o) 

- [Linux 64-bit](https://drive.google.com/uc?export=download&id=13jllkLTR6S3yVZLRdMwhWUu7lq3HyJsD) 

- [macOS 64-bit](https://drive.google.com/uc?export=download&id=1fIpj9A8SWIN1fABEUAS--DNhOHzqSL7f) 

## BiaPy

[BiaPy](https://biapyx.github.io) is an open source ready-to-use all-in-one library that provides deep-learning workflows for a large variety of bioimage analysis tasks, including 2D and 3D [semantic segmentation](https://biapy.readthedocs.io/en/latest/workflows/semantic_segmentation.html), [instance segmentation](https://biapy.readthedocs.io/en/latest/workflows/instance_segmentation.html), [object detection](https://biapy.readthedocs.io/en/latest/workflows/detection.html), [image denoising](https://biapy.readthedocs.io/en/latest/workflows/denoising.html), [single image super-resolution](https://biapy.readthedocs.io/en/latest/workflows/super_resolution.html), [self-supervised learning](https://biapy.readthedocs.io/en/latest/workflows/self_supervision.html) and [image classification](https://biapy.readthedocs.io/en/latest/workflows/classification.html).

BiaPy is a versatile platform designed to accommodate both proficient computer scientists and users less experienced in programming. It offers diverse and user-friendly access points to our workflows.

This repository is actively under development by the Biomedical Computer Vision group at the [University of the Basque Country](https://www.ehu.eus/en/en-home) and the [Donostia International Physics Center](http://dipc.ehu.es/).       

![BiaPy workflows](https://raw.githubusercontent.com/BiaPyX/BiaPy/master/img/BiaPy-workflow-readme.svg)

## Description video

Find a comprehensive overview of BiaPy and its functionality in the following videos:

| [![BiaPy history and GUI demo](https://raw.githubusercontent.com/BiaPyX/BiaPy/master/img/BiaPy_presentation_and_demo_at_RTmfm.jpg)](https://www.youtube.com/watch?v=Gnm-VsZQ6Cc "BiaPy: a ready-to-use library for Bioimage Analysis Pipelines") 
 BiaPy history and GUI demo at [RTmfm](https://rtmfm.cnrs.fr/en/) by Ignacio Arganda-Carreras and Daniel Franco-Barranco. |

|-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|

| [![BiaPy presentation](https://raw.githubusercontent.com/BiaPyX/BiaPy/master/img/BiaPy-Euro-BioImaging-youtube.png)](https://www.youtube.com/watch?v=6eYtX-ySpc0 "BiaPy: a ready-to-use library for Bioimage Analysis Pipelines") 
 BiaPy presentation at [Virtual Pub of Euro-BioImaging](https://www.eurobioimaging.eu/) by Ignacio Arganda-Carreras.                                                                      |                          |                          |                              | 

## For developers (through console):

Download the repository first:

```shell

git clone https://github.com/BiaPyX/BiaPy-GUI.git

cd BiaPy-GUI

```

This will create a folder called ``BiaPy-GUI`` that contains all the files of the repository. Then you need to create a conda environment and install the dependencies:

```shell

conda create -n biapy-gui python=3.10.10

conda activate biapy-gui

pip install -r requirements.txt

```

After that simply run the ``main.py`` :

```shell

python main.py

```

To create the binary files:

```shell

pyinstaller -F main.py

```

You can also modify the main.spec file (e.g. to add new images) and redo the binary:

```shell

pyinstaller main.spec

```

This will create a ``main.spec`` file and a ``dist`` folder with ``BiaPy`` binary inside it. 

## Citation

```

Franco-Barranco, Daniel, et al. "BiaPy: a ready-to-use library for Bioimage Analysis Pipelines." 

2023 IEEE 20th International Symposium on Biomedical Imaging (ISBI). IEEE, 2023.

```