Vergil R. Haynes's repositories

cns-roadmap

Essential learning content and resources for computational neuroscience and neuroinformatics

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Neural_Manifolds

A repository of neural manifold techniques described and compared in "Neural manifold analysis of brain circuit dynamics in health and disease"

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Probabilistic-Programming-and-Bayesian-Methods-for-Hackers

aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)

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AllenSDK

code for reading and processing Allen Institute for Brain Science data

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AmortizedCausalDiscovery

Code for the paper: Amortized Causal Discovery: Learning to Infer Causal Graphs from Time-Series Data

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ASU-Dissertation-Template

LaTeX Template for Typesetting Arizona State University Dissertations and Theses

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bmtk

Brain Modeling Toolkit

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bonsai_workflows

A collection of bonsai workflows developed at the Allen Institute

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dashboards

Jupyter Dashboards Layout Extension

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delfi

Density estimation likelihood-free inference

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brain_observatory_utilities

A repository for analysis tools for data available from the AllenSDK

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DIG

A library for graph deep learning research

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iGraphMatch

Tools to find the correspondences between vertices in different graphs.

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LargeScaleModelAnalysis_2019

Scripts related to analysis of models at the NeuroML Database as presented in 2019 CNS Poster

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ml-road

Machine Learning Resources, Practice and Research

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neuromore-studio

neuromore studio + engine open source repository

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neuronunit

A package for data-driven validation of neuron and ion channel models using SciUnit

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NRI

Neural relational inference for interacting systems - pytorch

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NWBShowcase

OSB Showcase project containing examples of NWB data

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pycortex

Pycortex is a python-based toolkit for surface visualization of fMRI data

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pynwb

A Python API for working with Neurodata stored in the NWB Format

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sc.io

Scientific Input-Output; Science-Open

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scidash-api

SciDash Python API to interact with the SciDash backend from any Python environment

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sciunit

A Python framework for test-driven validation of scientific models.

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tensortools

Fitting and visualizing tensor decompositions in Python

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visual_coding_2p_analysis

Visual Coding 2P analysis code

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