Getting started

Welcome to CellTracksColab! Before diving into the platform, let's ensure you have everything set up correctly and understand some foundational concepts.

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🌐 System Requirements

• Browser: Google Chrome, Firefox, or Safari.
• Google Account: Required for Google Colaboratory.

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📝 Acquainting with Google Colaboratory

If you're unfamiliar with Google Colab:

• Google Colab is a cloud-based platform that lets you write and execute Python code in a web browser.
• It provides free access to GPUs and TPUs.
• No setup required.

Google Colab Introduction ➡️

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📦 Data Preparation

• Format: CellTracksColab ingests tracking data stored in CSV files. If you can, provide the original movies as .tif files.

• Organization: Files should be organized within a two-tiered folder hierarchy: primary folder for experimental conditions and subfolders for biological repeats.

• Limitations: CellTracksColab does not support track splitting or merging.

  • Get Started with the General notebook

  • Get Started with the TrackMate notebook

• If you want CellTracksColab to be compatible with other dataset formats, please be in touch.

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