Spiky

Spiky is a Matlab application for the analysis of electrophysiological and behavioral data.

Spiky includes the Chronux library for spike sorting and spectral analysis (http://www.chronux.org), along with extra features for convenient sorting, data visualization and analysis of discrete and continuous data.

Features

• 1-click automatic spike sorting
• Visualization and validation tools
• Basic channel operators
• Per-channel bandpass filtering
• Custom math operators
• Zoom, scroll and pan data
• Analysis of discrete and continuous data
• Merging across data files
• Batch processing
• Matlab API
• Customizable extensions

Screenshot 1

Requirements

Matlab 6.5 or higher (preferred) on Linux, Windows or Mac.

Install

Synchronize the master branch with git, or download the latest '.zip' archive (see ZIP button above) and unpack to a local location. Add all sub-folders to the Matlab path. Type spiky to start.

API

Spiky is accessible from the command line or your own functions and extensions via a global structure containing function handles to all Spiky routines.

Documentation

https://github.com/pmknutsen/spiky/wiki

Issue/Bug Tracker

https://github.com/pmknutsen/spiky/issues

Data Formats

Import:

• Matlab Data Acquisition Toolbox (.daq)
• Open ePhys (.openephys)
• Axona (.set)
• Alpha Omega (.mat)
• Hierarchical Data Format (.hd5; requires R2012b or higher)
• Matlab vectors (.mat)

Export:

• Matlab (.mat)

Analysis Routines

Continuous:

• Cross correlation
• Event triggered average
• Histogram
• Spectral coherence
• Power spectral density
• Spectrogram

Discrete:

• Cross correlations
• Peristimulus time histogram (PSTH)
• Spike triggered average (STA)
• Temporal distribution

Extensions

Additional code can be added to extend Spiky functionality. Extensions can be placed in the /extensions folder, or their filenames prefixed with spiky_ and be located anywhere in the Matlab search path. See the file /extensions/Sample_Extension.m for details.