[chimerax-users] Mapping local correlation between two maps

[Reza Khayat]

Hi Elaine,

Worked like a charm, thank you so much!

Best wishes,
Reza

Reza Khayat, PhD
Assistant Professor
City College of New York
Department of Chemistry
New York, NY 10031

________________________________________
From: Elaine Meng <meng at cgl.ucsf.edu>
Sent: Wednesday, December 6, 2017 7:04 PM
To: Reza Khayat
Cc: chimerax-users at cgl.ucsf.edu
Subject: Re: [chimerax-users] Mapping local correlation between two maps

Hello Reza,
Do you mean you are using ChimeraX?  In that case you’d use the “color" command instead of Chimera’s scolor, currently something like

color #1 map #3 palette 0.6,red:0.7,white:1,blue

<https://urldefense.proofpoint.com/v2/url?u=http-3A__rbvi.ucsf.edu_chimerax_docs_user_commands_color.html-23map&d=DwIFaQ&c=4NmamNZG3KTnUCoC6InoLJ6KV1tbVKrkZXHRwtIMGmo&r=1DzJFW0v6TgEhkW1gy_-ke-RbtvS1fzEbD5_hcb9Up0&m=4K9RKICz5iBOj-1hqbNF3u7t3EYGdXrv0-P4YVpBBhw&s=dHlBuKl_m5W8h__0KlbA3m_Hdg7naPwjslegFXYmVjA&e= >

Syntax may change slightly later, but that’s the way it is now.  Also bear in mind that model numbers start at 1 in ChimeraX (no #0).
I hope this helps,
Elaine
----------
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Dec 6, 2017, at 3:42 PM, Reza Khayat <rkhayat at ccny.cuny.edu> wrote:
>
> Hi,
>
> Chimera allows one to map the CC between two maps onto a map and color the surface using the following commands:
>
> vop localCorrelation #0 #1
> scolor #0 volume #2 cmap 0.6,red:0.7,white:1,blue
>
> I'm having difficulty executing the second command -mapping the values onto the first volume and assigning colors. Any help would be appreciated.
>
> Best wishes,
> Reza
>
> Reza Khayat, PhD
> Assistant Professor
> City College of New York
> Department of Chemistry
> New York, NY 10031
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