On 3/13/25 09:08, Auffinger Pascal wrote:
Hi,
We would like to use map_peaks and map_peaks_near_point.
Sometimes depending on the sigma value we enter we get a different set of points
(I mean points that should be there and are replaced by others)
Yes, this can happen.
The manual says
Return a list of map peaks of molecule number imol_map above n_sigma.
There will be cluster filtering of the map peaks.
So what does cluster filtering mean here and could that have an
effect on our date
The peak search happens over a number of iterations - searching for the
highest peaks first. Coot finds all the local grid points that are above
the threshold and uses them to make a weighed mean position. So changing
the "n_sigma" will change the set of grid points above a particular
level and thus the shape of the blob and thus the average position.
If, on a subsequent round it find a peak that is "close" to an existing
peak, then the new, lower peak is filtered out.
Paul.
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