Vergil R. Haynes's repositories
cns-roadmap
Essential learning content and resources for computational neuroscience and neuroinformatics
Neural_Manifolds
A repository of neural manifold techniques described and compared in "Neural manifold analysis of brain circuit dynamics in health and disease"
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 ;)
AllenSDK
code for reading and processing Allen Institute for Brain Science data
AmortizedCausalDiscovery
Code for the paper: Amortized Causal Discovery: Learning to Infer Causal Graphs from Time-Series Data
ASU-Dissertation-Template
LaTeX Template for Typesetting Arizona State University Dissertations and Theses
bmtk
Brain Modeling Toolkit
bonsai_workflows
A collection of bonsai workflows developed at the Allen Institute
dashboards
Jupyter Dashboards Layout Extension
delfi
Density estimation likelihood-free inference
brain_observatory_utilities
A repository for analysis tools for data available from the AllenSDK
DIG
A library for graph deep learning research
iGraphMatch
Tools to find the correspondences between vertices in different graphs.
LargeScaleModelAnalysis_2019
Scripts related to analysis of models at the NeuroML Database as presented in 2019 CNS Poster
ml-road
Machine Learning Resources, Practice and Research
neuromore-studio
neuromore studio + engine open source repository
neuronunit
A package for data-driven validation of neuron and ion channel models using SciUnit
NRI
Neural relational inference for interacting systems - pytorch
NWBShowcase
OSB Showcase project containing examples of NWB data
pycortex
Pycortex is a python-based toolkit for surface visualization of fMRI data
pynwb
A Python API for working with Neurodata stored in the NWB Format
sc.io
Scientific Input-Output; Science-Open
scidash-api
SciDash Python API to interact with the SciDash backend from any Python environment
sciunit
A Python framework for test-driven validation of scientific models.
tensortools
Fitting and visualizing tensor decompositions in Python
visual_coding_2p_analysis
Visual Coding 2P analysis code