[Chimera-users] Coloring by bfactor

[Eric Pettersen]

On Friday, April 23, 2004, at 02:22 PM, Thomas Goddard wrote:
>   We have developed a Chimera tool to color by bfactor or other 
> attributes
> but it is not yet released.  We expect to have a new release in the 
> middle of
> May.

Hi Padma,
	I'd like to supplement Tom's answer to say that an undocumented 
version of the coloring tool he refers to did make it into the 1917 
snapshot release, which you could download, or you can use the 
alternatives Tom described instead.
	If you do go with the 1917 release, you bring up the coloring tool by 
selecting your model in the Model Panel and clicking the "render 
attrs..." button.  In the dialog that comes up in response you would 
pick "Attibutes of:  atoms", and then "attribute:  bfactor".  This will 
show you a histogram of the bfactor values and 3 color markers used to 
indicate the color range to use.  You can ctrl-click on the histogram 
to add/delete markers.  Normal clicking on a marker will allow you to 
adjust its color using the color well beneath the histogram.  You can 
also drag the markers left/right with the mouse or type in a value for 
you last selected marker in the "Value" entry field.
	This interface will be changed and improved in the next release, but 
is basically functional for what you want to do now.

                         Eric Pettersen
                         UCSF Computer Graphics Lab
                         pett at cgl.ucsf.edu
                         http://www.cgl.ucsf.edu