https://github.com/michaeljohnclancy/truespikes

https://github.com/michaeljohnclancy/truespikes

Last synced: 8 days ago
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• Host: GitHub
• URL: https://github.com/michaeljohnclancy/truespikes
• Owner: michaeljohnclancy
• Created: 2021-04-28T11:23:08.000Z (over 3 years ago)
• Default Branch: master
• Last Pushed: 2021-09-06T13:26:22.000Z (over 3 years ago)
• Last Synced: 2024-11-13T03:34:33.887Z (2 months ago)
• Language: Jupyter Notebook
• Size: 44.4 MB
• Stars: 0
• Watchers: 3
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

        
# Truespikes

Current implementation interfaces with spikeforest recordings via kachery to allow for easy browsing and retrieval of

raw recordings, ground truth firings and the associated sorting results.

## Installation

- Clone this repo

- Create some virtual environment (Optional)

- pip install -r requirements.txt

- Download kachery-daemon either in this environment, or globally in the system

- Install kachery-daemon

    - Follow this guide from "Running the daemon":

        - https://github.com/kacheryhub/kachery-doc/blob/main/doc/kacheryhub-markdown/hostKacheryNode.md#running-the-daemon

    - Then register your node with the spikeforest channel by following this guide:

        - https://github.com/flatironinstitute/spikeforest/blob/main/doc/join-spikeforest-download-channel.md

 - Test this installation by running the notebook "data_retrieval_example.ipynb"

        

### The study sets currently available 

['HYBRID_JANELIA', 'LONG_DRIFT', 'LONG_STATIC', 'MANUAL_FRANKLAB', 'PAIRED_BOYDEN', 'PAIRED_CRCNS_HC1', 'PAIRED_ENGLISH', 'PAIRED_KAMPFF', 'PAIRED_MEA64C_YGER', 'PAIRED_MONOTRODE', 'SYNTH_BIONET', 'SYNTH_MAGLAND', 'SYNTH_MEAREC_NEURONEXUS', 'SYNTH_MEAREC_TETRODE', 'SYNTH_MONOTRODE', 'SYNTH_VISAPY']