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Fabrizio Musacchio
Fabrizio Musacchio
@FabMusacchio@mastodon.social  ·  activity timestamp last week

There‘s now a #PyTorch version of #Cascade 👌, the #spike inference pipeline for #Calcium #imaging, as @ptrrupprecht just explained on his blog:

🌍 https://gcamp6f.com/2026/02/17/cascadetorch-a-pytorch-version-of-cascade-for-spike-inference/
🧑‍💻 https://github.com/PTRRupprecht/CascadeTorch
📄 https://www.nature.com/articles/s41593-021-00895-5

#CascadeTorch #DeepLearning #CompNeuro #Neuroscience #2pImaging #2p #opensource

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Cascade is a deep learning-based method for inferring neuronal spike rates from calcium imaging signals (ΔF/F traces). It uses convolutional neural networks trained on a large ground-truth database of simultaneous electrophysiology and calcium recordings. The original publication in 2021 was trained on a broad range of datasets; more recent versions were trained on mouse spinal cord data and, most recently, on variants of the new sensor GCaMP8. GIF source: https://gcamp6f.com/2026/02/17/cascadetorch-a-pytorch-version-of-cascade-for-spike-inference/
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GitHub - PTRRupprecht/CascadeTorch: Calibrated inference of spiking from calcium ΔF/F data using deep networks in PyTorch

Calibrated inference of spiking from calcium ΔF/F data using deep networks in PyTorch - PTRRupprecht/CascadeTorch
A blog about neurophysiology

CascadeTorch: a PyTorch version of Cascade for spike inference

I’m glad to share a PyTorch-based implementation of spike inference from calcium imaging data: CascadeTorch, now available on GitHub. The original Cascade repository remains fully supported. …
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