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OnACID: Online Analysis of Calcium Imaging Data in Real Time*

https://doi.org/10.1101/193383

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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The need for calcium imaging in nonhuman primates: New motor neuroscience and brain-machine interfaces

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NoRMCorre: An online algorithm for piecewise rigid motion correction of calcium imaging data

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Imaging Large-Scale Neural Activity with Cellular Resolution in Awake, Mobile Mice

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Automated Analysis of Cellular Signals from Large-Scale Calcium Imaging Data

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Closed-Loop and Activity-Guided Optogenetic Control

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Simultaneous Denoising, Deconvolution, and Demixing of Calcium Imaging Data

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Whole-brain functional imaging at cellular resolution using light-sheet microscopy

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Mapping brain activity at scale with cluster computing

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Parallel processing of visual space by neighboring neurons in mouse visual cortex

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Volitional modulation of optically recorded calcium signals during neuroprosthetic learning

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Millisecond-timescale, genetically targeted optical control of neural activity

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Swept confocally-aligned planar excitation (SCAPE) microscopy for high-speed volumetric imaging of behaving organisms

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Suite2p: beyond 10,000 neurons with standard two-photon microscopy

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Fast Nonnegative Deconvolution for Spike Train Inference From Population Calcium Imaging

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Efficient subpixel image registration algorithms

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Fast online deconvolution of calcium imaging data

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Multi-scale approaches for high-speed imaging and analysis of large neural populations

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All-Optical Interrogation of Neural Circuits

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Statistical Inference under Order Restrictions (The Theory and Application of Isotonic Regression)

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SIMA: Python software for analysis of dynamic fluorescence imaging data

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Automatic Neuron Detection in Calcium Imaging Data Using Convolutional Networks

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Author response: CaImAn an open source tool for scalable calcium imaging data analysis

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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DISCo: Deep Learning, Instance Segmentation, and Correlations for Cell Segmentation in Calcium Imaging

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Machine learning data processing as a bridge between microscopy and the brain

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Neural data science: accelerating the experiment-analysis-theory cycle in large-scale neuroscience

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Analysis pipelines for calcium imaging data

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FIOLA: an accelerated pipeline for fluorescence imaging online analysis

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ICoRD: iterative correlation-based ROI detection method for the extraction of neural signals in calcium imaging

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FPGA-Based In-Vivo Calcium Image Decoding for Closed-Loop Feedback Applications

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A Data-Driven Approach to Predict and Classify Epileptic Seizures from Brain-Wide Calcium Imaging Video Data

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LANMC

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Progress in automating patch clamp cellular physiology

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Computational Methods for Neuron Segmentation in Two-Photon Calcium Imaging Data: A Survey

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Analyzing Developing Brain-On-Chip Cultures with the CALIMA Calcium Imaging Tool

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Retinotectal circuitry of larval zebrafish is adapted to detection and pursuit of prey

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