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giovannivolpe authored Jan 13, 2025
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Expand Up @@ -85,11 +85,11 @@ Here you find a series of notebooks that give you an overview of the core featur

These are examples of how DeepTrack2 can be used on real datasets:

- DTEx101 **[MNIST](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx201_MNIST.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx201_MNIST.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx201 **[MNIST](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx201_MNIST.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx201_MNIST.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Training a fully connected neural network to identify handwritten digits using MNIST dataset.

- DTEx102 **[Single Particle Tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx202_single_particle_tracking.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx202_single_particle_tracking.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx202 **[Single Particle Tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx202_single_particle_tracking.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx202_single_particle_tracking.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Tracks experimental videos of a single particle. (Requires opencv-python compiled with ffmpeg)

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- DTEx103 **[Multi-Particle tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx203_particle_sizing.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx203_particle_sizing.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx203 **[Multi-Particle tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx203_particle_sizing.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx203_particle_sizing.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Detecting quantum dots in a low SNR image.

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- DTEx104 **[Particle Feature Extraction](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx204_multi_molecule_tracking.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx204_multi_molecule_tracking.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx204 **[Particle Feature Extraction](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx204_multi_molecule_tracking.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx204_multi_molecule_tracking.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Extracting the radius and refractive index of particles.

- DTEx105 **[Cell Counting](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx205_inline_holography_3d_tracking.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx205_inline_holography_3d_tracking.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx205 **[Cell Counting](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx205_inline_holography_3d_tracking.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx205_inline_holography_3d_tracking.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Counting the number of cells in fluorescence images.

- DTEx106 **[3D Multi-Particle tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx206_cell_counting.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx206_cell_counting.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx206 **[3D Multi-Particle tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx206_cell_counting.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx206_cell_counting.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Tracking multiple particles in 3D for holography.

- DTEx107 **[GAN image generation](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx207_GAN_image_generation.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx207_GAN_image_generation.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>
- DTEx207 **[GAN image generation](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx207_GAN_image_generation.ipynb)** <a href="https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx207_GAN_image_generation.ipynb"><img src="https://colab.research.google.com/assets/colab-badge.svg"></a>

Using a GAN to create cell image from masks.

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