Conformal mapping-based warping of neuronal arbor morphologies.
Project description
pywarper
pywarper is a Python package for conformal mapping-based warping of neuronal arbor morphologies, based on the MATLAB implementations (Sümbül, et al. 2014).
Installation
git clone https://github.com/berenslab/pywarper.git
pip install -e pywarper
By default, pywarper uses scipy.sparse.linalg.spsolve to solve sparse matrices, which can be slow. For faster performance, you can manually install scikit-sparse, as it requires additional dependencies:
# mac
brew install suite-sparse
# debian
sudo apt-get install libsuitesparse-dev
pip install -e pywarper[scikit-sparse]
Usage
See the example notebook for usage.
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