Neuroelectrophysiology tools
Project description
nept: Neuroelectrophysiology tools
Formerly vdmlab, renamed to emphasize general abilities of this library.
Getting started
If you don’t already have python 3, we recommend you download it using Miniconda from Continuum Analytics.
We recommend using a separate python environment.
Open a new terminal, create and activate a new conda environment:
conda create -n yourenv python=3.5 activate yourenv [Windows] or source activate yourenv [Linux]
Install package dependencies:
conda install matplotlib jupyter scipy numpy pandas seaborn pytest coverage
For Shapely, try:
pip install shapely
If that fails, in Windows, download the most recent wheel file here. Once downloaded, install with wheel.
pip install yourshapelyinstall.whl
Installation
Clone nept from Github and use a developer installation:
git clone https://github.com/vandermeerlab/nept.git cd nept python setup.py develop
Documentation
Users
Check GitHub Pages for the latest version of the nept documentation.
Developers
Ensure you have sphinx, numpydic, and mock:
conda install ghp-import sphinx numpydoc sphinx_rtd_theme
Install nbsphinx so notebooks in the documentations can be executed:
pip install nbsphinx --user
Build the latest version of the documentation using in the nept directory prior to pushing it to Github:
sphinx-build docs docs/_build
And push it to Github:
docs/update.sh
Testing
Run tests with pytest.
Check coverage with codecov.
License
The nept codebase is made available under made available under the MIT license that allows using, copying and sharing.
The file nept/neuralynx_loaders.py contains code from nlxio by Bernard Willers, used with permission.
Projects using nept
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