Generative Models of Neuron Morphology

A python package for extracting the features of neuron. It contains the scalar and histogram features such as:

Number of branching point
Histogram of distance from soma
Histogram of diameters
...

Installation

Clone the repository.

$ git clone https://github.com/RoozbehFarhoodi/McNeuron

Dependencies

Members

Roozbeh Farhoodi, Sharif University
Pavan Ramkumar, Northwestern University
Hugo Fernandes, Northwestern University

Acknowledgement

Konrad Koerding
COGC for funding
Package is developed in Konrad Kording's Lab at Northwestern University

Name		Name	Last commit message	Last commit date
Latest commit History 43 Commits
.ipynb_checkpoints		.ipynb_checkpoints
BonsaiNet		BonsaiNet
Data		Data
McNeuron		McNeuron
Test		Test
Features of different class of neurons.ipynb		Features of different class of neurons.ipynb
Figures of paper.ipynb		Figures of paper.ipynb
GANs for morphology and Geometry.ipynb		GANs for morphology and Geometry.ipynb
GANs for morphology.ipynb		GANs for morphology.ipynb
Generating Neurons.ipynb		Generating Neurons.ipynb
HG-GAN-Geometry.ipynb		HG-GAN-Geometry.ipynb
HG-GAN.ipynb		HG-GAN.ipynb
HG-GAN_run.ipynb		HG-GAN_run.ipynb
HG-GAN_run_cmc-Copy1.ipynb		HG-GAN_run_cmc-Copy1.ipynb
HG-GAN_run_cmc.ipynb		HG-GAN_run_cmc.ipynb
HG-GAN_run_models_with_features.ipynb		HG-GAN_run_models_with_features.ipynb
HG-GAN_testing_generators.ipynb		HG-GAN_testing_generators.ipynb
HG-GAN_training.ipynb		HG-GAN_training.ipynb
LICENCE		LICENCE
README.md		README.md
Random Dendrites.ipynb		Random Dendrites.ipynb
batch_utils.py		batch_utils.py
batch_utils3.py		batch_utils3.py
batch_utils3.pyc		batch_utils3.pyc
batch_utlis_morphology.py		batch_utlis_morphology.py
data_transforms.py		data_transforms.py
data_transforms.pyc		data_transforms.pyc
layers.py		layers.py
layers3.py		layers3.py
models.py		models.py
models2.py		models2.py
models3.py		models3.py
models_cmc.py		models_cmc.py
models_generate_parents.py		models_generate_parents.py
models_joint_embedding.py		models_joint_embedding.py
morphology_generator.py		morphology_generator.py
playing_with_prufer.ipynb		playing_with_prufer.ipynb
plot dendrograph.ipynb		plot dendrograph.ipynb
plot_utils.py		plot_utils.py
subsample.py		subsample.py
train.py		train.py
train2.py		train2.py
train_cmc.py		train_cmc.py
train_one_by_one.py		train_one_by_one.py
train_one_by_one_morphology.py		train_one_by_one_morphology.py

License

RoozbehFarhoodi/McNeuron

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Generative Models of Neuron Morphology

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