[3dem] 3D image alignment

[Ajay Gopinath]

Thank you for your suggestions. I am currently using Chimera to do  
this. To align images I1 and I2, I do the "fit in map" I1 in I2 a  
couple of times and then do I2 in I1 "fit in map" to get the best  
alignment. Since there were certain regions of the image which were  
not well aligned, I wanted to see if I can get better results using  
other tools. I have had good success in using chimera to fit PDB into  
maps but while fitting these particular two density maps I am having  
some trouble. This could be due to the nature of the data. I have also  
tried the software package XMIPP but its alignment was not that good.

I will try some of the other tools suggested here and see if they work  
out better for me.

thanks,

ajay


On Sep 21, 2009, at 12:19 PM, Junjie Zhang wrote:

> Hi, Ajay,
>
> The UCSF Chimera has a function called "fit in map" which will do  
> that.
>
> Regards,
> Junjie
>
> On Monday, September 21, 2009, Ajay Gopinath <ajay at ices.utexas.edu>  
> wrote:
>> Hi,
>>
>> Does anyone know of a good software or tool that can align two EM  
>> density maps (in 3D) using rigid transformations? Something that  
>> would typically take mrc or spider format would be helpful.
>>
>> thanks,
>>
>> ajay
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>>
>
> -- 
> Regards,
> Junjie (George) Zhang