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Organoid Prediction Python

This library contains image and data analysis functions to analyse high throughput data of stembryos to ultimately forward predict development. It currently includes functions for:

  • Image Processing
  • Feature Extraction
  • Data Processing
  • Visualisation

Installation

To install this library you will need to have pip installed in your environment of choice. Clone this GitHub Repository to your drive and navigate to the folder containing setup.py and run the command: pip install -e .

Disclaimer

This is not (yet) an exhaustive library for organoid analysis and I do not guarantee functionality

Licensing

Some functions have been taken from other libraries and modified in accordance with their respective licenses including:

  • MOrgAna - Authors: Nicola Gritti, Jia Le Lim, Kerim Anlaş, David Oriola, Mallica Pandya, Germaine Aalderink, Guillermo Martinez Ara, Vikas Trivedi
  • GraViz - Authors: Nowak, J., Eng, R.C., Matz, T., Waack, M., Persson, S., Sampathkumar, A. and Nikoloski, Z
  • Dash - Plotly, Inc

The respective Licenses and Authors are included in the files containing the modified code.