Hello,
I would like to understand the threshold settings in highlighting the sources when using stc.plot(). I’m aware by using the keyword argument, “clim” , one can change the threshold settings, however, I don’t find it intuitive to understand. I also don’t understand what is the default threshold (control points for min, mid, max) value MNE considers. Could some explain a bit?
Thanks in advance,
Harish
Hello,
I have figured it out and I’m writing it down here so it will be useful for the others.
As the default, MNE uses “percentile” (not percentage) values to set the threshold [min = 96, mid = 97.5, max = 99.95].
In other words, clim = 'auto' is equivalent to clim=dict(kind="percent", lims = (96, 97.5, 99.95)) in case of positive magnitude and clim=dict(kind="percent", pos_lims = (96, 97.5, 99.95)) in the case of postive-negative magnitude.
Btw, is there a standard in M/EEG community to set the threshold values?