Software
Electrographic Seizure Analyzer
Software, code, and user manual for offline electrographic seizure analysis can be found in Zeidler et al., 2018 Extended Data 1.
and through github: https://github.com/KM-Lab/Electrographic-Seizure-Analyzer
RRID:SCR_016344
Spectrum & Coherence Analysis
Code for spectral and coherence analysis in Christenson Wick et al, eLIFE, 2019
is available through github at
github: https://github.com/KM-Lab/SpectrumAndCoherence
MiniPC
Code for place cell identification and analysis from miniscope recordings a la Zeidler et al, JNeurosci, 2020
is also available through github: https://github.com/KM-Lab/MiniPC
Relevant matlab code for flagging seizures which are likely to be large behavioral seizures (see Zeidler et al., 2018 for more information) can be found below:
fdata = fft(data);
fdata(1:floor(20/fs))=0;
fdata(floor(200/fs):end)=0;
envelope_data = abs(ifft(fdata));
[c,d]=butter(2,.1/500,’low’);
smooth_envelope_Data = filtfilt(c,d,envelope_data);
On-demand Recorder and Analyzer Software and accompanying User Guide
can be found in the supplemental material of Armstrong C, Krook-Magnuson E, Oijala M, Soltesz I.
"Closed-loop optogenetic intervention in mice."
Nature Protocol. 2013 Aug;8(8):1475-93. doi: 10.1038/nprot.2013.080. Epub 2013 Jul 11.
Direct link to supplemental: https://www.nature.com/articles/nprot.2013.080#supplementary-information