Author: Liam Paninski

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Preprints

Bright and photostable chemigenetic indicators for extended in vivo voltage imaging

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  • Site-wide: 1,044
  • In neuroscience: 35
• Year to date:
  • Site-wide: 5,463
• Since beginning of last month:
  • Site-wide: 7,789

Hierarchical recurrent state space models reveal discrete and continuous dynamics of neural activity in C. elegans

• Downloaded 7,443 times
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  • Site-wide: 2,015
  • In neuroscience: 93
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  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 6,002

NeuroPAL: A Neuronal Polychromatic Atlas of Landmarks for Whole-Brain Imaging in C. elegans

• Downloaded 6,830 times
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  • Site-wide: 2,290
  • In neuroscience: 106
• Year to date:
  • Site-wide: 61,715
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  • Site-wide: 15,743

Penalized matrix decomposition for denoising, compression, and improved demixing of functional imaging data

• Downloaded 4,391 times
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  • Site-wide: 4,184
  • In neuroscience: 287
• Year to date:
  • Site-wide: 26,193
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  • Site-wide: 13,040

Neural Networks for Efficient Bayesian Decoding of Natural Images from Retinal Neurons

• Downloaded 3,951 times
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  • Site-wide: 4,892
  • In neuroscience: 370
• Year to date:
  • Site-wide: 20,359
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  • Site-wide: 51,830

Multiscale and multimodal reconstruction of cortical structure and function

• Downloaded 3,460 times
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  • Site-wide: 5,930
  • In neuroscience: 466
• Year to date:
  • Site-wide: 19,540
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  • Site-wide: 30,432

Reproducibility of in-vivo electrophysiological measurements in mice

• Downloaded 3,437 times
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  • Site-wide: 5,996
  • In neuroscience: 518
• Year to date:
  • Site-wide: 1,030
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  • Site-wide: 1,601

YASS: Yet Another Spike Sorter

• Downloaded 3,121 times
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  • Site-wide: 6,911
  • In neuroscience: 598
• Year to date:
  • Site-wide: 165,572
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  • Site-wide: 117,909

OnACID: Online Analysis of Calcium Imaging Data in Real Time

• Downloaded 2,875 times
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  • Site-wide: 7,747
  • In neuroscience: 674
• Year to date:
  • Site-wide: 133,211
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  • Site-wide: 196,944

Deep Graph Pose: a semi-supervised deep graphical model for improved animal pose tracking

• Downloaded 2,674 times
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  • Site-wide: 8,649
  • In animal behavior and cognition: 50
• Year to date:
  • Site-wide: 28,995
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  • Site-wide: 22,110

Localized semi-nonnegative matrix factorization (LocaNMF) of widefield calcium imaging data

• Downloaded 2,405 times
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  • Site-wide: 10,160
  • In neuroscience: 965
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 145,113

Flygenvectors: The spatial and temporal structure of neural activity across the fly brain

• Downloaded 2,346 times
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  • Site-wide: 10,568
  • In neuroscience: 1,113
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  • Site-wide: None
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  • Site-wide: 8,237

Partitioning variability in animal behavioral videos using semi-supervised variational autoencoders

• Downloaded 2,254 times
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  • Site-wide: 11,219
  • In neuroscience: 1,086
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 31,449

Community-based benchmarking improves spike rate inference from two-photon calcium imaging data

• Downloaded 2,214 times
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  • Site-wide: 11,519
  • In neuroscience: 1,132
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  • Site-wide: None
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  • Site-wide: 93,594

Recurrent Switching Dynamical Systems Models for Multiple Interacting Neural Populations

• Downloaded 2,182 times
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  • Site-wide: 11,786
  • In neuroscience: 1,170
• Year to date:
  • Site-wide: 66,919
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  • Site-wide: 39,055

YASS: Yet Another Spike Sorter applied to large-scale multi-electrode array recordings in primate retina

• Downloaded 2,006 times
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  • Site-wide: 13,366
  • In neuroscience: 1,379
• Year to date:
  • Site-wide: 89,644
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  • Site-wide: 14,945

EASE: EM-Assisted Source Extraction from calcium imaging data

• Downloaded 1,917 times
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  • Site-wide: 14,335
  • In neuroscience: 1,503
• Year to date:
  • Site-wide: 46,223
• Since beginning of last month:
  • Site-wide: 38,817

Complementary networks of cortical somatostatin interneurons enforce layer specific control

• Downloaded 1,908 times
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  • Site-wide: 14,434
  • In neuroscience: 1,520
• Year to date:
  • Site-wide: 136,465
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  • Site-wide: 20,097

Neuroscience Cloud Analysis As a Service

• Downloaded 1,892 times
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  • Site-wide: 14,609
  • In neuroscience: 1,552
• Year to date:
  • Site-wide: 24,070
• Since beginning of last month:
  • Site-wide: 18,664

The central amygdala controls learning in the lateral amygdala

• Downloaded 1,821 times
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  • Site-wide: 15,542
  • In neuroscience: 1,635
• Year to date:
  • Site-wide: 189,606
• Since beginning of last month:
  • Site-wide: 208,778

High fidelity estimates of spikes and subthreshold waveforms from 1-photon voltage imaging in vivo

• Downloaded 1,630 times
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  • Site-wide: 18,448
  • In neuroscience: 2,059
• Year to date:
  • Site-wide: 64,893
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  • Site-wide: 187,635

Electrical Stimulus Artifact Cancellation and Neural Spike Detection on Large Multi-Electrode Arrays

• Downloaded 1,558 times
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  • Site-wide: 19,809
  • In neuroscience: 2,242
• Year to date:
  • Site-wide: 190,532
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  • Site-wide: 148,934

The Markov link method: a nonparametric approach to combine observations from multiple experiments

• Downloaded 1,392 times
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  • Site-wide: 23,776
  • In bioinformatics: 2,614
• Year to date:
  • Site-wide: 114,829
• Since beginning of last month:
  • Site-wide: 59,654

A zero-inflated gamma model for post-deconvolved calcium imaging traces

• Downloaded 1,342 times
• Download rankings, all-time:
  • Site-wide: 25,182
  • In neuroscience: 3,040
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 59,691

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

• Downloaded 1,322 times
• Download rankings, all-time:
  • Site-wide: 25,809
  • In neuroscience: 3,074
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 176,285

Scalable variational inference for super resolution microscopy

• Downloaded 1,139 times
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  • Site-wide: 32,653
  • In bioinformatics: 3,438
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 174,237

Scalable approximate Bayesian inference for particle tracking data

• Downloaded 1,114 times
• Download rankings, all-time:
  • Site-wide: 33,780
  • In bioinformatics: 3,565
• Year to date:
  • Site-wide: 165,675
• Since beginning of last month:
  • Site-wide: 173,974

Rapid learning of neural circuitry from holographic ensemble stimulation enabled by model-based compressed sensing

• Downloaded 1,052 times
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  • Site-wide: 36,840
  • In neuroscience: 5,571
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 4,539

Semi-supervised sequence modeling for improved behavioral segmentation

• Downloaded 992 times
• Download rankings, all-time:
  • Site-wide: 40,401
  • In animal behavior and cognition: 338
• Year to date:
  • Site-wide: 8,217
• Since beginning of last month:
  • Site-wide: 13,229

Extracting neural signals from semi-immobilized animals with deformable non-negative matrix factorization

• Downloaded 943 times
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  • Site-wide: 43,638
  • In neuroscience: 5,779
• Year to date:
  • Site-wide: 185,370
• Since beginning of last month:
  • Site-wide: 34,352

A Statistical Model of Shared Variability in the Songbird Auditory System

• Downloaded 920 times
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  • Site-wide: 45,305
  • In neuroscience: 5,930
• Year to date:
  • Site-wide: 97,548
• Since beginning of last month:
  • Site-wide: 196,611

BARcode DEmixing through Non-negative Spatial Regression (BarDensr)

• Downloaded 912 times
• Download rankings, all-time:
  • Site-wide: 45,948
  • In genomics: 3,452
• Year to date:
  • Site-wide: 156,846
• Since beginning of last month:
  • Site-wide: 79,224

Nonlinear decoding of natural images from large-scale primate retinal ganglion recordings

• Downloaded 827 times
• Download rankings, all-time:
  • Site-wide: 53,387
  • In neuroscience: 7,321
• Year to date:
  • Site-wide: 81,938
• Since beginning of last month:
  • Site-wide: 52,770

Visualizing the organization and differentiation of the male-specific nervous system of C. elegans

• Downloaded 584 times
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  • Site-wide: 86,654
  • In neuroscience: 12,539
• Year to date:
  • Site-wide: 74,586
• Since beginning of last month:
  • Site-wide: 61,702

Three-dimensional spike localization and improved motion correction for Neuropixels recordings

• Downloaded 579 times
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  • Site-wide: 87,537
  • In neuroscience: 13,024
• Year to date:
  • Site-wide: 9,953
• Since beginning of last month:
  • Site-wide: 63,478

Versatile Multiple Object Tracking in Sparse 2D/3D Videos Via Diffeomorphic Image Registration

• Downloaded 362 times
• Download rankings, all-time:
  • Site-wide: 141,232
  • In neuroscience: 23,856
• Year to date:
  • Site-wide: None
• Since beginning of last month:
  • Site-wide: 12,867

Improved blind demixing methods for recovering dense neuronal morphology from barcode imaging data

• Downloaded 331 times
• Download rankings, all-time:
  • Site-wide: 150,604
  • In neuroscience: 22,238
• Year to date:
  • Site-wide: 59,223
• Since beginning of last month:
  • Site-wide: 113,171

Robust online multiband drift estimation in electrophysiology data

• Downloaded 120 times
• Download rankings, all-time:
  • Site-wide: 203,946
  • In neuroscience: None
• Year to date:
  • Site-wide: 51,784
• Since beginning of last month:
  • Site-wide: 1,913