This code is associated with the paper from Galtieri et al., "Pedunculopontine glutamatergic neurons control spike patterning in substantia nigra dopaminergic neurons". eLife, 2017. http://dx.doi.org/10.7554/eLife.30352

Neurphys

Neurphys (pronounced "nervous") is an IO and analysis package built to streamline and standardize the data handling, analysis, and visualization of electrophysiology and calcium imaging data.

Dependencies

• numpy
• scipy
• pandas
• neo
• lxml

Installation

First, download Anaconda which will come with most required libraries including numpy, pandas, scipy. Then download or clone the repository using git as follows,

$ git clone https://github.com/surmeierlab/neurphys

You can download dependencies which we provide in requirements.txt. Use pip to install the rest of dependencies i.e.

$ pip install -r requirements.txt

Install neurphys using setup.py as follows

$ python setup.py develop install

Usage

import neurphys as nu

Check out the tutorials page for jupyter notebooks showing specific use cases.