shhong

ocnc2023

a310_cns_2023

A310 Computational Neuroscience at OIST - Exercise lessons and homework

affinewarp

An implementation of piecewise linear time warping for multi-dimensional time series alignment

arbor

The Arbor multi-compartment neural network simulation library.

avatarpy

avatar

BlenderSpike

A Blender add-on to bring animations from NEURON

cb2_project_analysis

Analysis source code for CB2 project

course-content-dl

DeepLabCut

Markerless pose estimation of user-defined features with deep learning for all animals, including humans

DeepLabCut-Workshop-Materials

Workshop material for using DeepLabCut

detect_CS

Deep learning based detection of complex spikes

elephant

Elephant is the ElectroPhysiology Analysis Toolkit

handout

Turn Python scripts into handouts with Markdown and figures

HetFFN-

Codes for paper "Lamina-specific neuronal properties promote robust, stable signal propagation in feedforward networks", NeurIPS 2020

hierarchical_lfads

Pytorch implementation of lfads, and hierarchical extension

jupytext

Jupyter notebooks as Markdown documents, Julia, Python or R scripts

neuromatch_ssl_tutorial

Neuromatch 2021 SSL tutorial

neuron_as_deep_net

Code behind the work "Single Cortical Neurons as Deep Artificial Neural Networks", published in Neuron 2021

neuron_reduce

NeuroPyxels

NeuroPyxels (npyx) is a python library built for electrophysiologists using Neuropixels electrodes. This package stems from the need of a pythonist who really did not want to transition to MATLAB to work with Neuropixels: it features a suite of core utility functions for loading, processing and plotting Neuropixels data.

nrn

NEURON Simulator

pycabnn

Python tool for constructing an anatomical basis of a neural network

pynapple

PYthon Neural Analysis Package :pineapple:

PyNN

A Python package for simulator-independent specification of neuronal network models.

rnaSeqMiniCourse

shhong.github.io

subtle

Spectrogram-UMAP-based Temporal Link Embedding

taichi

Productive & portable programming language for high-performance, sparse & differentiable computing on CPUs & GPUs

tslearn

A machine learning toolkit dedicated to time-series data

vispy

Main repository for Vispy