The SSC1 pipeline in DataJoint
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README.md
SSC1-define.ipynb
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ssc1_ingest.py

README.md

djcat-ssc1

This pipeline is based on the study described in:

A Cellular Resolution Map of Barrel Cortex Activity during Tactile Behavior. Simon P. Peron, Jeremy Freeman, Vijay Iyer, Caiying Guo, Karel Svoboda. Neuron. 2015 May 6;86(3):783-99. doi: 10.1016/j.neuron.2015.03.027

with data available from http://crcns.org/NWB/data-sets/ssc/ssc-1

SSC-1 Schema

Entity-Relationship Diagram

Online viewing

All Jupyter notebooks in this catalog can be better viewed online through the Jupyter.org viewer at http://nbviewer.jupyter.org/github/datajoint-catalog

Obtain credentials

If you need a database account to try these examples, you can get a free tutorial account by subscribing through https://datajoint.io.

Before you start working with the pipeline, please obtain the following credentials:

  • host address
  • user name
  • password

Setup

The instructions for downloading the DataJoint library are available here:

http://docs.datajoint.io/setup/Install-and-connect.html

Additionally, the common 'djcat-lab' module for general experiment data needs to be cloned from:

https://github.com/datajoint-catalog/djcat-lab.git

since it is referenced from this project. Be sure to setup your PYTHONPATH variable accordingly so that djcat-lab is included in sys.path. For example, your djcat-lab source code is stored in the same folder as this experiment, you can add it from within python as follows:

>>> import sys
>>> import os
>>> sys.path.insert(0, os.path.join('..','djcat-lab'))

Support

Please submit issues and questions through the Issues tab above