Modular analysis tools for neurophysiology data

Related tags

Data Analysis neuroanalysis
Overview

Neuroanalysis

Modular and interactive tools for analysis of neurophysiology data, with emphasis on patch-clamp electrophysiology.

  • Functions for running common analysis algorithms
    • Synaptic/calcium event detection and characterization
    • Synaptic release modeling
    • VC and CC spike detection and characterization
    • VC and CC test pulse analysis
    • Basic signal processing (filtering, baseline removal, etc.)
  • Data abstraction layer to allow adapting new data formats (see neuroanalysis/data.py)
  • Re-usable user interface elements for implementing common analysis tasks

Status

This project is early in development and does not yet have a stable API. Issues and pull requests are accepted (see CONTRIBUTING.md), but may not be reviewed or accepted on any fixed schedule.

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Comments
  • update packaging for PyPI

    update packaging for PyPI

    I want to depend on this package in a different project, but it was not on PyPI. This PR:

    • fills in setup.py with more details
    • moves misc files aside to not clutter top-level
    • gitignores build artifacts
    • extends copyright to include all recent work

    The results have been packaged and published. I'm happy to give package admin rights to anyone representing AI that wants them, or to just administer the package myself for the foreseeable future.

    opened by outofculture 1
  • Dataset refactor cherrypick

    Dataset refactor cherrypick

    This is a cherry-picked version of PR #2 (Data model work for 2p opto compatability #2) such that it includes changes for the Dataset data model refactor, but not changes for other data models (Experiment, Cell, Pair, etc) that are still in progress.

    opened by meganbkratz 0
Owner
Allen Institute
Please visit http://alleninstitute.github.io/ for more information.
Allen Institute
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