Spike Train Analysis Toolkit table of contents.
General functions and utilities.
make - Compile functions in the Spike Train Analysis Toolkit.
entropy1d - Entropy from a 1-D histogram.
entropy1dvec - Entropy from a vector of 1-D histograms.
info2d - Information and entropies from a 2-D histogram.
infocond - Information and entropies from conditional and total histograms.
matrix2hist2d - Converts a 2-D matrix of counts to a 2-D histogram.
staread - Read STAD and STAM files into an input data structure.
stawrite - Write STAD and STAM files from an input data structure.
staraster - Raster plot of an input data structure.
multisitearray - Convert a multi-site input data structure
multisitesubset - Extract a subset of sites from a multi-site
staversion - Return the version and revision number of the Spike Train Analysis Toolkit.
Demonstrations and verification.
demo/demo_all - Run all directcat, binless, and metric information demos on the 'synth' and 'taste' datasets.
demo/demo_binless - Run binless information demo on the 'synth', 'taste', or 'drift' datasets.
demo/demo_ctwmcmc - Run CTWMCMC formal information demo on the 'inforate' datasets.
demo/demo_directcat - Run directcat information demo on the 'synth', 'taste', or 'drift' datasets.
demo/demo_directformal - Run directformal information demo on the 'inforate' datasets.
demo/demo_entropy - Compare entropy estimates on sythentic data (not NSB).
demo/demo_metric - Run metric information demo on the 'synth', 'taste', or 'drift' datasets.
demo/demo_metric_multi - Run metric information demo on a multineuron dataset.
demo/demo_nsb - Compare entropy estimates with NSB on reduced synthetic data.
demo/scalefig - Scale a given figure window by a given factor.
demo/staverify - Verify successful installation of the toolkit.
Direct method.
directcat - Direct method analysis to determine category-specific information.
directcat_jack - Direct method analysis to determine category-specific information with leave-one-out jackknife.
directcat_shuf - Direct method analysis to determine category-specific information with shuffled inputs.
directformal - Direct method analysis to determine formal information.
directbin - Bin spike trains for direct method analysis.
directcondcat - Condition data on category.
directcondformal - Condition data on both category and time slice.
directcondtime - Condition data on time slice.
directcountclass - Count spike train words in each class.
directcountcond - Count spike train words in each class and disregarding class.
directcounttotal - Count spike train words disregarding class.
Metric space method.
metric - Metric space analysis
metric_jack - Metric space analysis with leave-one-out jackknife.
metric_shuf - Metric space analysis with shuffled inputs.
metricopen - Prepare input data structure for metric space analysis.
metricdist - Compute distances between sets of spike train pairs.
metricclust - Cluster spike trains based on distance matrix.
Binless method.
binless - Binless method analysis.
binless_jack - Binless method analysis with leave-one-out jackknife.
binless_shuf - Binless method analysis with shuffled inputs.
binlessopen - Extract useful information for binless method.
binlesswarp - Warp spike times.
binlessembed - Embed the spike trains.
binlessinfo - Compute information components using binless method.
CTWMCMC method.
ctwmcmc - CTWMCMC method analysis.
ctwmcmctree - Build CTW tree graph(s).
ctwmcmcsample - Do MCMC sampling of entropy on CTW tree graph(s).
ctwmcmcbridge - Build and sample CTW tree graph(s) without outputing tree(s) (to conserve memory).
ctwmcmcinfo - Compute information from CTW entropy estimates.
This function calls: