/neurotic

Project to infer 3D structure from Open Connectome data

Primary LanguageMatlab

neurotic

Project to infer 3D structure from Open Connectome data

Requirements:

Files:

  • latex/ -- see submission.tex.
  • src/ -- code for this project. cd to this directory and run startup to prepare the environment. In particular,
    • experiment/ -- main functions; entry point for running code
    • neal3_iter.m, neal8_iter.m -- Implementations of MCMC sampling based on Radford Neal's papers (details in comments)
    • MDP.m, MDPLight.m, NormalWishart.m, GammaGamma.m, etc. -- Class implementations of conjugate distributions supporting online inference.
    • GraphDist.m, GraphDistDistribution.m -- Support for Geodesic distances (details in paper)
  • src/scrape - scripts (mostly curl) to download data from openconnecto.me and compatible servers. Some scripts placeholders for secret keys. Please email the repository collaborators for details.
  • ddpcode/ - Dependence Dirichlet Process tracking module due to Willie Neiswanger.
  • data/ - Code expects data to live here. Scraping code puts it here.