SFARI ARC - Kind Lab Conversion Progress

[alessandratrapani]

Fear Conditioning Dataset Conversion Progress

16/250hrs

Pre-Conversion

• Repo Setup
• Initial Inspection and Notes: Delineation of Projects, Experiments and Data Streams
• Identify and request missing data/metadata/READMEs
• Acquire all data needed for conversion

Conversion Project 1: Behavior + Ephys

• Convert all sessions

Behavior

• Three-axis head-mounted accelerometer (OpenEphys)
• Video (".avi" or ".mkv" or ".ts")
• Seizure screening ?

External Stimuli

• Behavioural paradigm triggers (CS/US) were programmed with Freeze Frame software (Actimetrics).
• Shock stimuli ?

Ephys

• Local Field Potentials (LFP) (Intan/OpenEphys)
• Electro-EncephaloGram (EEG) (Intan/OpenEphys)

Temporal Alignment

• TTL pulse --> all_channels.events (OpenEphys)

Post-Conversion

• Setup Dandiset(s)
• Inspection/Validation
• README/Documentation
• Example Notebooks

Spyglass compatibility

• Adapt conversion pipeline to comply with any Spyglass-specific requirements for NWB files.
• Integrate NWB files as source data in a Spyglass pipeline.

Conversion Project 2: Behavior only

7 different task only behavior

• Convert all sessions

1. Auditory Fear Conditioning

• Video (.ffii) (script to convert to avi)
• Freeze Behavior (.fft .ffdd --> FreezeFrame
• Behavior Analysis (.csv / .xls)

2. Object Location Memory

• Video (.ts or .mkv)
• Video Scores (.boris --> BORIS) Only Scn2a subjects

3. Object Recognition

• Video (.ts or .mkv)
• Video Scores (.boris) Only Scn2a subjects

4. Water Maze

• Video (.avi)
• Analysis with Actimetrix software (.wmpf and .csv)

5. Prey Capture

• Video (.ts files, .mp4 or .mkv)
• Ultrasonic Vocalisation (USV) (.wav)
• USV detection (.mat are they actually usable?)

6. Marble interaction

• Video (.ts or .mp4)

7. 1 Trial Social

• Video ()
• Ultrasonic Vocalisation (USV) (.wav)
• Video Scores (.boris)

Post-Conversion

• Setup Dandiset(s)
• Inspection/Validation
• README/Documentation
• Example Notebooks