[Chimera-users] Question about vop maximum

Reyhan Muhammad reyhan.muhammad at kaust.edu.sa
Fri May 8 05:40:35 PDT 2020

Dear Chimera Users,

I am new to Chimera and cryoEM. For my project, I would like to create a
single map (which will be used as a mask) for six 3D classes. To achieve
that, I have aligned all my six maps using Chimera 'Fit in Map' and used
vop maximum (vop maximum #0,#1,#2,#3,#4,#5) to generate a new map that is
supposed to 'cover' all the other maps.

My question is, when I look at the vop output map (green map in the file
attachment), why do we still see some densities from input maps (salmon
color) outside the vop output map? I have also adjusted the contour level
of all map to 0.04 (volume all step 1 level 0.04). I hope someone could
help me to clarify my understanding of vop maximum.

Thank you for your help.

Best wishes,



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