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Data Book for Summer Workshop on the Dynamic Brain
Experimental Data
Background
Mouse visual system
Transgenic tools
Behavioral apparatus
Extracellular electrophysiology
Neuropixels Probes
Unit Quality Metrics
Optotagging
Calcium imaging
Ophys ephys comparison
EM Connectomics
Common Coordinate Framework
Physiology & Behavior
Stimuli and Behavioral Tasks
Visual Stimuli
Change detection
Dynamic Routing Task Overview
Dynamic Foraging
Optical Physiology
Visual Coding Ophys
Visual Coding Ophys Dataset
Getting data from a session
V1 Deep Dive
V1DD Dataset
Accessing V1DD data
Visual stimuli
Visual Behavior Ophys
Visual Learning
Visual Learning - Behavior
Visual Learning Ophys
Tutorial Session Metadata
Linking Ophys and Transcriptomics
Brain Computer Interface
BCI Dataset
Accessing BCI Data
BCI Stimuli
Electrophysiology
Visual Coding — Neuropixels
Visual Coding Neuropixels Metadata
Accessing Visual Coding Neuropixels data
Visual Stimuli
Visual Behavior Neuropixels
Cell Type Look-up Table
Cell Type Lookup Table Metadata
Optotagging
Accessing cell type lookup table data
Identifying tagged neurons
Neuropixels Ultra & Psychedelics
NP Ultra & Psychedelics Stimuli and Optotagging protocol
Accessing NP Ultra & Psychedelics Data
Dynamic Routing
Dynamic Routing Metadata
Accessing Dynamic Routing data
Anatomy
Electron Microscopy
Dataset Basics
Proofreading and Data Quality
Neuroglancer
Dash Apps
Setting up CAVEclient
Programmatic Access
Coordinate Systems
CAVE Annotation Tables
MICrONS Key Tables
V1DD Key Tables
Imagery and Segmentation
Skeletons
Meshes
MICrONS Functional Data
V1DD Functional Data
Ultrastructure Resources
Single Cell Morphology
ExaSPIM Image Processing
Single Cell Morphology Data Access
Cell Types
Visual Learning Transcriptomics
Computational Tools
Data Analysis Tutorials
Principal Component Analysis
Regression
Generalized Linear Model (GLM)
Classification Tutorial
Resources
Glossary
Practicalities
Creating a Code Ocean capsule synced to GitHub repo
Collaborating using Code Ocean
Git
References
Contributors and Credits
Repository
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V1DD Functional Data
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Optical Physiology: V1DD
