[Chimera-users] select

maznar maznar at merlin.ffn.ub.es
Wed Oct 5 08:04:50 PDT 2011

    Hi Elaine,

    Thank you very much, you helped me a lot.


On Tue, 4 Oct 2011 11:13:16 -0700, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> Hi Maria,
> You can't really select part of a map, but you can delete or "erase" parts
> of it.
> With the Volume Eraser tool (under Tools... Volume Data in menu), you can
> place a sphere on the map and erase everything outside (or inside) that
> sphere.  However, that requires moving the sphere by hand, which might be
> hard.
> <http://plato.cgl.ucsf.edu/chimera/docs/ContributedSoftware/voleraser/voleraser.html>
> Another possibility is to create a surface in the shape of a sphere, or
> icosahedron, or sphere-icosahedron blend with specified center using the
> "shape" command, and then use the "mask" command to erase outside that
> surface.  I'm not sure if the masking gets the inside or outside by
> default, but there is a keyword to invert so you will be able to both.
> <http://plato.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/shape.html>
> <http://plato.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/mask.html>
> Actually I don't know what shape that virus is.  The above assumes
> something roundish or icosahedral.  The "shape" command includes other
> shapes, but if the virus is irregular, it may be necessary to use some
> other program to create a surface of the shape needed for masking.
> I hope this helps,
> Elaine
> ----------
> Elaine C. Meng, Ph.D. 
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> On Oct 3, 2011, at 8:16 AM, maznar wrote:
>>       Hello,
>>       I working about Bam35c virus (emd_1123.map). That virus has a
> capsid and other things inside. I want used only exterior part (between 315
> and 335 amstrons) and discard other parts. How can I select only this
> external part?
>>       Thank you for your help
>>       María 
> _______________________________________________
> Chimera-users mailing list
> Chimera-users at cgl.ucsf.edu
> http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users

More information about the Chimera-users mailing list