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PackIO and EphysViewer: software tools for acquisition and analysis of neuroscience data

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What this work says

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

inferredcites →https://doi.org/10.1016/j.bpj.2008.08.005openalex-snapshot

Spike Inference from Calcium Imaging Using Sequential Monte Carlo Methods

inferredcites →https://doi.org/10.1016/j.neuron.2011.02.025openalex-snapshot

Dense Inhibitory Connectivity in Neocortex

inferredcites →https://doi.org/10.1016/j.neuron.2016.02.037openalex-snapshot

Cooperative Subnetworks of Molecularly Similar Interneurons in Mouse Neocortex

inferredcites →https://doi.org/10.1021/cn4000692openalex-snapshot

Two-Photon Optical Interrogation of Individual Dendritic Spines with Caged Dopamine

inferredcites →https://doi.org/10.1021/ja5026326openalex-snapshot

Two-Photon Neuronal and Astrocytic Stimulation with Azobenzene-Based Photoswitches

inferredcites →https://doi.org/10.1038/ncomms3574openalex-snapshot

Circuit reactivation dynamically regulates synaptic plasticity in neocortex

inferredcites →https://doi.org/10.1038/nmeth.2249openalex-snapshot

Two-photon optogenetics of dendritic spines and neural circuits

inferredcites →https://doi.org/10.1038/nmeth.3217openalex-snapshot

Simultaneous all-optical manipulation and recording of neural circuit activity with cellular resolution in vivo

inferredcites →https://doi.org/10.1038/nmeth0715-692bopenalex-snapshot

Erratum: Simultaneous all-optical manipulation and recording of neural circuit activity with cellular resolution in vivo (Nature Methods (2015) 12 (140-146))

inferredcites →https://doi.org/10.1038/nmeth1105openalex-snapshot

Two-photon photostimulation and imaging of neural circuits

inferredcites →https://doi.org/10.1073/pnas.1112378108openalex-snapshot

Astrocytic regulation of cortical UP states

inferredcites →https://doi.org/10.1073/pnas.1321869111openalex-snapshot

Activity-dependent dendritic spine neck changes are correlated with synaptic strength

inferredcites →https://doi.org/10.1093/cercor/bhh092openalex-snapshot

Correlation Maps Allow Neuronal Electrical Properties to be Predicted from Single-cell Gene Expression Profiles in Rat Neocortex

inferredcites →https://doi.org/10.1093/cercor/bhs210openalex-snapshot

Axo-Dendritic Overlap and Laminar Projection Can Explain Interneuron Connectivity to Pyramidal Cells

inferredcites →https://doi.org/10.1152/jn.00071.2014openalex-snapshot

Acetylcholine functionally reorganizes neocortical microcircuits

inferredcites →https://doi.org/10.1152/jn.00334.2011openalex-snapshot

Heuristically optimal path scanning for high-speed multiphoton circuit imaging

inferredcites →https://doi.org/10.1152/jn.00427.2010openalex-snapshot

Designing optimal stimuli to control neuronal spike timing

inferredcites →https://doi.org/10.1152/jn.00885.2014openalex-snapshot

Decoding thalamic afferent input using microcircuit spiking activity

inferredcites →https://doi.org/10.1152/jn.01073.2009openalex-snapshot

Fast Nonnegative Deconvolution for Spike Train Inference From Population Calcium Imaging

inferredcites →https://doi.org/10.1371/journal.pone.0003971openalex-snapshot

UP States Protect Ongoing Cortical Activity from Thalamic Inputs

inferredcites →https://doi.org/10.1523/jneurosci.0169-14.2014openalex-snapshot

Mouse Visual Neocortex Supports Multiple Stereotyped Patterns of Microcircuit Activity

inferredcites →https://doi.org/10.1523/jneurosci.1977-13.2013openalex-snapshot

Scaling of Topologically Similar Functional Modules Defines Mouse Primary Auditory and Somatosensory Microcircuitry

inferredcites →https://doi.org/10.1523/jneurosci.3131-11.2011openalex-snapshot

Dense, Unspecific Connectivity of Neocortical Parvalbumin-Positive Interneurons: A Canonical Microcircuit for Inhibition?

inferredcites →https://doi.org/10.1523/jneurosci.3646-15.2016openalex-snapshot

Opening Holes in the Blanket of Inhibition: Localized Lateral Disinhibition by VIP Interneurons

inferredcites →https://doi.org/10.1523/jneurosci.4579-12.2013openalex-snapshot

Decorrelating Action of Inhibition in Neocortical Networks

inferredcites →https://doi.org/10.3389/fncir.2010.00012openalex-snapshot

Quantitative classification of somatostatin-positive neocortical interneurons identifies three interneuron subtypes

inferredcites →https://doi.org/10.3389/fncir.2014.00029openalex-snapshot

Simultaneous imaging of neural activity in three dimensions

inferredcites →https://doi.org/10.3389/fncir.2014.00101openalex-snapshot

Local changes in neocortical circuit dynamics coincide with the spread of seizures to thalamus in a model of epilepsy

inferredcites →https://doi.org/10.3389/fnins.2010.00029openalex-snapshot

Two-photon microscopy with diffractive optical elements and spatial light modulators

inferredcites →https://doi.org/10.3389/fnins.2010.00201openalex-snapshot

The Enigmatic Function of Chandelier Cells

inferredcites →https://doi.org/10.3389/neuro.04.002.2009openalex-snapshot

RuBi-Glutamate: Two-photon and visible-light photoactivation of neurons and dendritic spines

inferredcites →https://doi.org/10.3389/neuro.04.005.2008openalex-snapshot

SLM microscopy: scanless two-photon imaging and photostimulation using spatial light modulators

inferredcites →https://doi.org/10.3389/neuro.04.006.2009openalex-snapshot

Two-photon imaging with diffractive optical elements

inferredcites →https://doi.org/10.3389/neuro.04.015.2009openalex-snapshot

Depolarizing effect of neocortical chandelier neurons

inferredcites →https://doi.org/10.7916/d8416wckopenalex-snapshot

State-dependent function of neocortical chandelier cells

What points at this work

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

inferred← citeshttps://doi.org/10.1016/j.celrep.2018.12.088openalex-snapshot

Comparative Evaluation of Genetically Encoded Voltage Indicators

inferred← citeshttps://doi.org/10.1016/j.celrep.2024.114189openalex-snapshot

Highly local activation of inhibition at the seizure wavefront in vivo

inferred← citeshttps://doi.org/10.1016/j.crmeth.2025.101180openalex-snapshot

A real-time all-optical interface for dynamic perturbation of neural activity during behavior

inferred← citeshttps://doi.org/10.1016/j.cub.2017.02.049openalex-snapshot

Non-overlapping Neural Networks in Hydra vulgaris

inferred← citeshttps://doi.org/10.1016/j.cub.2019.05.012openalex-snapshot

Mapping the Whole-Body Muscle Activity of Hydra vulgaris

inferred← citeshttps://doi.org/10.1016/j.neuron.2024.04.015openalex-snapshot

A latent pool of neurons silenced by sensory-evoked inhibition can be recruited to enhance perception

inferred← citeshttps://doi.org/10.1021/acschemneuro.3c00725openalex-snapshot

In Vivo Two-Photon Microscopy Reveals Sensory-Evoked Serotonin (5-HT) Release in Adult Mammalian Neocortex

inferred← citeshttps://doi.org/10.1038/s41467-021-27444-9openalex-snapshot

Simultaneous two-photon imaging of action potentials and subthreshold inputs in vivo

inferred← citeshttps://doi.org/10.1038/s41467-024-46484-5openalex-snapshot

The influence of cortical activity on perception depends on behavioral state and sensory context

inferred← citeshttps://doi.org/10.1038/s41467-025-59659-5openalex-snapshot

Perinatal serotonin signalling dynamically influences the development of cortical GABAergic circuits with consequences for lifelong sensory encoding

inferred← citeshttps://doi.org/10.1038/s41467-026-69254-xopenalex-snapshot

Serotonin modulates nucleus accumbens circuits to suppress aggression in mice

inferred← citeshttps://doi.org/10.1038/s41593-019-0381-8openalex-snapshot

Predictive and reactive reward signals conveyed by climbing fiber inputs to cerebellar Purkinje cells

inferred← citeshttps://doi.org/10.1038/s41593-022-01151-0openalex-snapshot

Behaviorally relevant decision coding in primary somatosensory cortex neurons

inferred← citeshttps://doi.org/10.1038/s41593-023-01284-wopenalex-snapshot

Norepinephrine links astrocytic activity to regulation of cortical state

inferred← citeshttps://doi.org/10.1101/2021.12.28.474343openalex-snapshot

Perception and propagation of activity through the cortical hierarchy is determined by neural variability

inferred← citeshttps://doi.org/10.1101/2023.07.01.547318openalex-snapshot

Optical resolution is not the limiting factor for spatial precision of two-photon optogenetic photostimulation

inferred← citeshttps://doi.org/10.1101/2025.11.26.690732openalex-snapshot

Serotonin modulates nucleus accumbens circuits to suppress aggression

inferred← citeshttps://doi.org/10.1101/489930openalex-snapshot

Cellular multifunctionality in the muscle activity of Hydra vulgaris

inferred← citeshttps://doi.org/10.1101/706010openalex-snapshot

The influence of visual cortex on perception is modulated by behavioural state

inferred← citeshttps://doi.org/10.1117/1.nph.11.1.015006openalex-snapshot

Contribution of optical resolution to the spatial precision of two-photon optogenetic photostimulation in vivo

inferred← citeshttps://doi.org/10.1117/1.nph.13.1.015007openalex-snapshot

Desensitization of opsin responses during all-optical interrogation depends on imaging parameters

inferred← citeshttps://doi.org/10.7554/elife.58889openalex-snapshot

How many neurons are sufficient for perception of cortical activity?

inferred← citeshttps://doi.org/10.7554/elife.98002openalex-snapshot

Single neurons and networks in the mouse claustrum integrate input from widespread cortical sources

inferred← citeshttps://doi.org/10.7554/elife.98002.1openalex-snapshot

Single neurons and networks in the claustrum integrate input from widespread cortical sources

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