A pipeline for an retina electrophysiology study
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README.md
Ret1-erds.ipynb
erd-lab.png
erd-ret1.png
erd.png
ret1.py
ret1_ingest.py
test.py

README.md

djcat-RET-1

A pipeline for an retina electrophysiology study

This pipeline is based on the study described in:

Lefebvre, J.L., Zhang, Y., Meister, M., Wang, X., and Sanes, J.R. (2008) Gamma-Protocadherins regulate neuronal survival but are dispensable for circuit formation in retina. Development 135:4141-4151.

with data available from:

https://crcns.org/data-sets/retina/ret-1/about-ret-1

RET-1 Schema

Entity-Relationship Diagram

Entire Pipeline

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