Section: User Commands (1)
Return to Main Contents


spfrqramps - calculate spike frequency and current min/max for current ramps  


spfrqramps [-n num] [-c wfnum] [-ct thresh] [-cd delay] [-s wfnum] [-t thresh] [-h hyst] [-d] [-r start,end] [-a] runfile  


Spfrqramps first looks at the injected current waveform, to determine the range of samples to be analysed. It then backs off the end point (when current is turned off) by 0.2 ms, to avoid spikes that are artifacts of the current being switched off. It then analyses the spike frequencies and current levels up and down the current ramp.

Output will be in this form:

"Filename", RampNo, Nspikes, MinIup, MinIdown, MaxI, MinFQup, MinFQdown, MaxFQ

where the spike frequencies (FQ) are in Hz, and the current (I) is in the units for which that waveform was calibrated.

It runs the analysis(1) program on a copy of each specified runfile, so the changes it makes during analysis (copying or differentiating waveforms, setting waveform parameters) will not alter any of your run files or their parameters.  


-n num
Specifies the number of samples of the current waveform that will be averaged, centered at each spike start time, to obtain the corresponding current level (default is 1).
-c wfnum
Specifies the waveform number for the injected current waveform (default is 0).
-ct thresh
Specifies the current threshold for burst detection. The default action is automatic detection using the mean current level, or the cycle threshold previously set in the waveform parameters for this current waveform.
-cd delay
Specifies the minimum crossing delay for burst detection, in ms. The ideal is about half of the expected current burst duration. The default value is 800.
-s wfnum
Specifies the waveform number for the waveform containing the spikes to be measured (default is 1).
-t thresh
Specifies the spike threshold to be used for the waveform above, given as a differential (default is 500). If the -d option is used, then the spike threshold is given in whatever units the analysis program uses for displaying this waveform, but the default is stil the same.
-h hyst
Specifies the spike triggering hysteresis to be used for the waveform above, given as a second differential, i.e. relative to the threshold. The default is 0, for no hysteresis.
Specifies that spike triggering will not be on a differential waveform, and threshold above will be an actual waveform level. By default, the spike waveform is differentiated to allow triggering on a waveform with a lot of baseline shift.
-r start,end
Specifies the start and end time in the runfile, in milliseconds or whatever is selected as the current time units in the runfile's analysis parameters. This overrides the range determined by detecting a current burst in the injected current waveform.
-r mult
Specifies that multiple bursts of current will be looked at on the injected current waveform, and each burst will be processed and reported.
-r start,end,mult
Specifies the start and end of the analysis range, and specifies that multiple bursts in that range will be analysed.
Specifies that an ASCII text file of the times and frequencies should be generated for each run file, as comma-separated values (a .csv file). The times (X values) are first on each line, followed by frequencies (Y values).
Causes the program to output a summary of command usage and options.


spfrqramps -s 2 -c 1 FF1740521
Simple case using mostly defaults. The FF1740521 in the command line is the runfile analysed, and the spike and current waveform numbers are given explicitly as 2 and 1 respectively.
spfrqramps -r mult -c 1 -s 0 -d -t -32.9089 -n 25 050909-031
Multiple current ramps are analysed in the run file 050909-031, with differentiation turned off, and the spike threshold is set at -32.9089 mV. The current at each spike is calculated from an average of 25 samples.
spfrqramps -n 5 -c 1 -ct -2.75 -cd 4200 -s 0 -t -5 -h 1 -r mult -a 091103-014
All current ramps in run file 091103-014 are analysed, with almost all options specified explicitly. The differential spike threshold is -5, with a positive hysteresis of 1, so it will trigger on negative-going spikes.


analysis(1), avgspfrq(1), spfrqpeel(1)



This document was created by man2html, using the manual pages.
Time: 19:13:03 GMT, May 23, 2018
Copyright © G. R. Detillieux, Spinal Cord Research Centre, The University of Manitoba.