[3dem] Data storage and compression

[Takanori Nakane]

Hi,

 > Is it possible to convert mrc files to compressed tiff immediately after
 > data collection,

Yes.

SerialEM can directly write in compressed TIFF.

For EPU and K2/K3, it is very important to select
'gain-unnormalised MRC' for compression to work.
Gain-normalised, floating point MRC compresses very poorly.

For Falcon, ZIP compression in TIFF is better (but slower).

 > motioncor2, RELION

Yes.

 > keep everything compressed

All derivatives (aligned and summed micrographs, extracted particles,
etc) are uncompressed MRCs but the original movie can remain
TIFF throughout the processing.

Best regards,

Takanori Nakane

On 2019/08/29 20:19, Matthew H. Cahn wrote:
> Is it possible to convert mrc files to compressed tiff immediately after 
> data collection, and use that compressed tiff for all the downstream 
> processing?  For example, if I compress the mrc files from our Krios to 
> tiff with LZW (lossless) compression, using IMOD’s mrc2tif, can 
> motioncor2, RELION, CryoSPARC, etc. handle that format and keep 
> everything compressed throughout the process?
> 
> — Matthew
> 
> *||  Matthew Cahn  |  Linux Administrator  |  Dept. of Molecular Biology 
> / Research Computing  |  Princeton University  |  (609) 258-5404  | 
> mcahn at princeton.edu <mailto:mcahn at princeton.edu>  ||
> *
> 
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