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arxiv-style

A Latex style and template for paper preprints (based on NIPS style)

biochemical_reaction_graph

Creates interactive reaction graph in the web browser for NeuroRD tool

bioinformatics

blenderneuron

Exports 3D structure and activity from NEURON simulator to Blender

bogacz-2016

Implementation of Actor Uncertainty (AU) Model based on: Mikhael, J. G. & Bogacz, R. Learning Reward Uncertainty in the Basal Ganglia. PLoS Comput. Biol. (2016)

bogacz-2019

Implementation of: Möller, M., & Bogacz, R. (2019). Learning the payoffs and costs of actions. In PLoS Computational Biology (Vol. 15, Issue 2). https://doi.org/10.1371/journal.pcbi.1006285

camp_2019_ei_balance_neuron

NCBS CAMP 2019: Neuron based project for EI balance

combeetal2018-modeldb

This is a "fork" from CA1 pyramidal neuron (Combe et al 2018) from: https://senselab.med.yale.edu/modeldb/ShowModel.cshtml?model=244416 The intention of this fork is to create a file containing all Ca currents for all time steps for apical dendrites.

covid-poland-by-region

Auto updated graph shows new COVID-19 cases in Poland by region based on Wikipedia: https://pl.wikipedia.org/wiki/Pandemia_COVID-19_w_Polsce#Statystyki

deep-learning-workshop-2019

Code for Deep Learning Workshop for Nencki Openlab in the Nencki Experimental Biology Institute, Polish Academy of Sciences

deep-q-learning

Simple Deep Q Learning example

differentiable_neuron

Example of ionic channel dynamics implemented only in Python from HH model, Graham et al. 2014 mode. The repository also contains Ca2+ radial diffusionl through dendritic spine implemented in NEURON

grahametal2014-modeldb

This is a fork from Graham et al. 2014 model from ModelDB. The purpose of this fork was to preserve in separate file calcium currents for 4 spines in Striatum Radiatum part of the CA1 Pyramidal Neuron (selected spines are indicated by colored bars)

moose_nerp

MOOSE model of the Medium Spiny Neurons and CA1 Piramidal Neurons

morpho_learning

The framework to train morphologically complex neurons with approach from classical machine learning

morpho_neuro_rxd

Morphological model of neuron with RxD ionic diffusion. Based on NEURON.

neuron_get_started

Simple example of NEURON + NetPyNE installation with instruction and test files. Useful for CentOS configuration on the cluster

neuron_gui2

Jupyter Notebook which shows the new capabilities of GUI2 for NEURON. Downloaded from https://neuron.yale.edu/ftp/ramcdougal/ball-and-stick-1.ipynb

neuronpp

Neuron++ is a library which wraps NEURON (http://www.neuron.yale.edu) with easy to use Python objects.

neuronpp_gym

Spiking Neural Gym agent created on top of NEURON++ and OpenAI Gym libraries

ollama_web_client

online_inception

This is an example of how pretrained convolutional neural network for image recognition can learn like humans from what it sees in real time. It uses pretrained Inception v3 network.

slurm_scripts

Easy to run scripts for Slurm jobs

spiking_neural_agents

Research of Brian2 usage for spiking neural network agents with reinforcement learning purpose

stdp_adrenergic_project

stochdiff

Stochastic diffusion simulator

swot

Identify email addresses or domains names that belong to colleges or universities. Help automate the process of approving or rejecting academic discounts.

tecogan

This repo will contain source code and materials for the TecoGAN project, i.e. code for a TEmporally COherent GAN

topically-driven-language-model-py35

Tensorflow code to train TDLM

webots_agent

Webots based robotic agents implementation for Reinforcement learning and Spiking Neural Networks