Gain correction using cisTEM

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anaa2
Gain correction using cisTEM

Hi,

Regarding gain correction using cisTEM's sum_all_mrc_files, is this done on the movie stacks (i.e mrcs). If so, what are the outputs and could they be applied to motion correction? I was trying to find some documentation on this.

 

Best wishes,

Noor

 

 

timgrant
Hi Noor,

Hi Noor,

Yes, many of the command line files have no documentation.  

sum_all_mrc_files (there is also a sum_all_tif_files). Will create a sum of all the mrc files (not mrcs) in the directory that it is run.  If you set the option "Take reciprocal and scale" to yes, then it will produce a file that should be usable directly as a gain image.  The idea is indeed that you put (or link)  a set of movies that are consistent (i.e. they were all taken on the same day / session) into one directory and run one of these programs to get a gain reference for those movies.

Cheers,

Tim

anaa2
Thank you Tim, I am doing

Thank you Tim, I am doing this right now.

 

Best wishes,

Noor

clee02
Hi Tim

Hi Tim

I am using sum_all_tif. Does it also do some kind of normalization and outlier removal?

Thank you.

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