[3dem] simulated micrograph for ctf determination?

[Alexandre Cunha]

We are also interested in something similar. We searched but didn't find 
programs that can take a known protein complex, for example from the PDB, and 
automatically generate random noisy projections similar to what could be a real 
single particle experiment. Ideally we would like to be able to control image 
properties (level and type of noise, CTF, etc.) so to parameterize and quantify 
our classification methods accordingly.

Any recommendations are really appreciated.

- Alex.

Steven Ludtke wrote:
> There are several programs which will do this. For my part, you can use 
> ctfit or applyctf  in EMAN1. However,
> even with realistic pink noise added, these images still remain an 
> imperfect simulation of real images. Different
> programs use different strategies for the raw image processing (working 
> with the whole micrograph, boxed out
> particles, boxed out carbon film, etc.), so it's hard to come up with a 
> single uniform test for them all...
> 
> ----------------------------------------------------------------------------
> Steven Ludtke, Ph.D.
> Associate Professor, Dept. of Biochemistry and Mol. Biol.      Those who do
> Co-Director National Center For Macromolecular Imaging            ARE
> Baylor College of Medicine                                     The converse
> sludtke at bcm.edu <mailto:sludtke at bcm.edu>  -or- 
>  stevel at alumni.caltech.edu <mailto:stevel at alumni.caltech.edu>           
>     also applies
> http://ncmi.bcm.edu/~stevel
> 
> On Sep 10, 2009, at 4:55 PM, jinghua tang wrote:
> 
>> To test various programs for determine the CTF, or simply the defocus, 
>> does anyone have
>> a way to generate a simulated micrograph in which different CTF was 
>> applied?
>>
>> Thank you in advance for your kind helps!
>>
>> Jinghua
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> 
> 
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