[chimerax-users] Measuring surface area of a colored portion of the map

[Y. Mutum]

Hi

This problem relates to surface area of a low-resolution EM map using ChimeraX

I have opened the following map and the corresponding model using the following commands in ChimeraX.

>>> open 4uq8; open 2676 from emdb
>>> color #1 green; color zone #2 near #1 dist 4

As many parts of the map are unmodelled, I am interested 'how much of the map is unmodelled' in terms of surface area.  This is mainly because the model is not accurate and I am trying to only use the raw-data (map) to estimate the surface area and avoid using the model.

Is there a way to figure out how much of the map is unmodelled in terms of surface area? In this case, count the number of 'outer pixels of a map' that are colored green or gray, at a given map contour?

Could you please help with a way to measure this without using the 'volume splitbyzone' command?

Thanks
Yaikhomba

[cid:71184965-9ba5-4374-82b3-bd2b264b4b0c]
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20210518/97b8e6cc/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image.png
Type: image/png
Size: 724538 bytes
Desc: image.png
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20210518/97b8e6cc/attachment-0001.png>