articlePLoS Computational BiologyMar 14, 2017GOLD OA

Fast online deconvolution of calcium imaging data

JFJohannes FriedrichPZPengcheng ZhouLPLiam Paninski

Janelia Research Campus · Columbia University · +3 more institutions

PubMed
Indexed inarxivcrossrefdatacitedoajpubmed

Abstract

Fluorescent calcium indicators are a popular means for observing the spiking activity of large neuronal populations, but extracting the activity of each neuron from raw fluorescence calcium imaging data is a nontrivial problem. We present a fast online active set method to solve this sparse non-negative deconvolution problem. Importantly, the algorithm 3progresses through each time series sequentially from beginning to end, thus enabling real-time online estimation of neural activity during the imaging session. Our algorithm is a generalization of the pool adjacent violators algorithm (PAVA) for isotonic regression and inherits its linear-time computational complexity. We gain remarkable increases in…

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628
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Topics & keywords

Topics
Keywords
  • Deconvolution
  • Computer science
  • Calcium
  • Artificial intelligence
  • Algorithm
  • Medicine
  • Internal medicine
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