Owner
AllenNeuralDynamics
155 indexed repositories · View on GitHub
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aind-ephys-pipeline
AIND pipeline for processing extracellular electrophysiology data
Nextflow · 41 stars
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aind-data-schema
A library that defines AIND data schema and validates JSON.
Python · 34 stars
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openscope-community-predictive-processing
This repository serves as a hub for community-driven contributions, documentation, and project tracking of the OpenScope Predictive Proce...
Python · 26 stars
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aind-large-scale-cellpose
Large-scale cell segmentation with cellpose.
Python · 10 stars
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Rhapso
An open-source Python toolkit for large-scale fluorescence microscopy data alignment and fusion.
Python · 9 stars
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dynamic-foraging-task
Bonsai/Harp workflow for Dynamic Foraging with Python GUI for visualization and control
Python · 7 stars
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aind-smartspim-pipeline
Repository that hosts the SmartSPIM pipeline code
Nextflow · 6 stars
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wavpack-numcodecs
Numcodecs implementation of the WavPack audio codec
C · 5 stars
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voxel-classic
General purpose microscope control repository
Python · 4 stars
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view
Model/View for exa-spim
Python · 4 stars
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harp.device.lickety-split
0360: an ephys-compliant capacitive lick detector
C++ · 4 stars
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runze-control
Python Driver for Aurora Pro Scientific (aka Runze Fluid) syringe pumps
Python · 4 stars
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parallax
Automatic detection of probe position from multiple camera views
Python · 4 stars
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aind-SmartSPIM-segmentation
segmentation module for SmartSPIM cloud pipeline
Python · 4 stars
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aind-smartspim-stitch
Stitching and fusion pipeline in the cloud
Python · 4 stars
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aind-smartspim-ccf-registration
Registration of lightsheet whole brain images to the Allen CCF V3 Atlas
Python · 4 stars
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aind-data-access-api
Library to interface with AIND databases
Python · 3 stars
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aind-ephys-spikesort-kilosort4
CodeOcean capsule for ephys spike sorting with Kilosort4
Python · 3 stars
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Dockerfile · 3 stars
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pinpoint
Next-generation in vivo electrophysiology planning and automation tool.
TypeScript · 3 stars
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Metadata
AllenNeuralDynamics/aind_data_outreach#17 · 3 comments · 0 reactions · 1 assignee ·
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Analysis
AllenNeuralDynamics/aind_data_outreach#34 · 1 comment · 0 reactions · 1 assignee ·
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documentation
AllenNeuralDynamics/aind_data_outreach#36 · 5 comments · 0 reactions · 3 assignees ·
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documentation
AllenNeuralDynamics/aind_data_outreach#43 · 2 comments · 0 reactions · 4 assignees ·
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Specimen procedures have an extra field for "subject_id" with a different subject_id than the asset OpenMetadata
AllenNeuralDynamics/aind_data_outreach#51 · 7 comments · 0 reactions · 1 assignee ·
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Metadata
AllenNeuralDynamics/aind_data_outreach#53 · 0 comments · 0 reactions · 1 assignee ·
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Analysis
AllenNeuralDynamics/aind_data_outreach#58 · 2 comments · 0 reactions · 1 assignee ·
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paper
AllenNeuralDynamics/aind_data_outreach#69 · 1 comment · 0 reactions · 2 assignees ·
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paper
AllenNeuralDynamics/aind_data_outreach#70 · 2 comments · 0 reactions · 2 assignees ·
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AllenNeuralDynamics/aind_data_outreach#73 · 1 comment · 0 reactions · 1 assignee ·
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Analysis
AllenNeuralDynamics/aind_data_outreach#77 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#78 · 4 comments · 0 reactions · 3 assignees ·
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documentation SWDB Workshop
AllenNeuralDynamics/aind_data_outreach#79 · 1 comment · 0 reactions · 1 assignee ·
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Analysis
AllenNeuralDynamics/aind_data_outreach#87 · 2 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind-metadata-queries#5 · 2 comments · 0 reactions · 0 assignees ·
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AllenNeuralDynamics/aind-metadata-queries#6 · 1 comment · 0 reactions · 0 assignees ·
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AllenNeuralDynamics/aind-metadata-queries#9 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/abc-merfish-analysis#1 · 0 comments · 0 reactions · 1 assignee ·
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Analysis
AllenNeuralDynamics/aind_data_outreach#109 · 1 comment · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#116 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#122 · 0 comments · 0 reactions · 0 assignees ·
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SWDB
AllenNeuralDynamics/aind_data_outreach#128 · 2 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#129 · 1 comment · 0 reactions · 1 assignee ·
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Website
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Website
AllenNeuralDynamics/aind_data_outreach#183 · 1 comment · 0 reactions · 2 assignees ·
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Protocols
AllenNeuralDynamics/aind_data_outreach#201 · 1 comment · 0 reactions · 1 assignee ·
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Protocols
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Protocols
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AllenNeuralDynamics/aind_data_outreach#194 · 0 comments · 0 reactions · 1 assignee ·
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internal support
AllenNeuralDynamics/aind_data_outreach#195 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#199 · 3 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#214 · 0 comments · 0 reactions · 1 assignee ·
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internal support Metadata
AllenNeuralDynamics/aind_data_outreach#215 · 0 comments · 0 reactions · 1 assignee ·
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Upgrade NP Ultra rig OpenMetadata
AllenNeuralDynamics/aind_data_outreach#216 · 1 comment · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#239 · 3 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#248 · 3 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#249 · 1 comment · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#251 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#259 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#261 · 2 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#264 · 2 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#265 · 0 comments · 0 reactions · 1 assignee ·
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AllenNeuralDynamics/aind_data_outreach#272 · 7 comments · 0 reactions · 2 assignees ·
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