Script to generate random angles for projection
Hi,
I do not want to reinvent the wheel: Would anybody give away a script that generates a number of combinations of random angles to be used for making random projections of a volume?
Thanks, D.
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I do not have a script ready
I do not have a script ready to share since I did not have to generate random angles for a while. I would use Spider and generate angles with the calculator function RAN (http://spider.wadsworth.org/spider_doc/spider/docs/user_doc.html#pocket…).
bfactor
Hi Nico,
first thanks a lot for the hint with the random angles! I also found another way by using xmipp-2.4 explained in this tutorial:
http://xmipp.cnb.uam.es/newxmippdoc/Reconstruction/reconstruction.pdf
I have another question: can I use your bfactor program to smoothen an arbitrary binary 3D mask? And if so, how? Thanks for hints, Dieter
You can use bfactor to apply
In reply to bfactor by dieter
You can use bfactor to apply a low-pass filter. It gives you the option to use a Gaussian or a cosine-edged filter. If you want to use bfactor only for low-pass filtering, set the applied B-factor to 0.
Thanks! Do I understand
In reply to You can use bfactor to apply by niko
Thanks! Do I understand correctly:
I first make a (arbitrary) mask (level 0 for solvent and level 1 for protein) from my volume, then take this mask (and in bfactor) low-pass filter it (say e.g. 50,50 A), and setting the applied B-factor to 0, it will become a soft mask with raised cosine (with no sharp edges)? I have tried this but the levels are not any more 0 - 1 but something different. So, I cannot use it as a mask! What is wrong? What parameters would be a reasonable choice?
Thanks, D.
I think what you are tying to
In reply to Thanks! Do I understand by dieter
I think what you are tying to do cannot be done with bfactor. You can only apply a low-pass filter.
OK, I think, I found, what I
In reply to I think what you are tying to by niko
OK, I think, I found, what I was looking for: spider MA SOFT!