K-L w/ Fiser lab

How to read stim times and spike times for K-L stims analysis:

Step 1: Make sure all of the cells have been imported to the experiment.mat file for the experiment you want to analyze:

ds = dirstruct([MYPATHNAME '2053-01-02']) ; % or whatever your experiment is named

importspikedata(ds); % import all records from the multichannel acquisition system

Optional Step: Use the built-in functions to explore the spiketimes and stimtimes:

stimtimes = kl_extractstimtimes(ds,'t00001'); % substitute your own directory for t00001

spiketimes = kl_extractspiketimes(ds,'t00001'); % substitute your own directory for t00001

Step 2: Create time-bins of the spike trains associated with the various events for a given directory. (check out help MarjenaData2SpikeBins)



The EventData is in the order 'blank', 'noise', 'gratings', 'movie' (the KL_matrix below will be in the same order)

Step 3: Calculate the event-by-event KL (check out help MarjenaData2SpikeBins)

[KL_matrix, H_matrix] = JohannaKL(spikes);

See help JohannaKL for the information on the outputs. This doesn't yet perform any scrambling of the spiketime bins in time or across channels.

That's it for now!

Intan advice:

If you have lots of Intan .rhd files in a single directory, you can concatenate them into one with the function concat_rhd_files(dirname).

You can use the Intan sorter to extract spikes from Intan files