[3dem] EMI to MRC image format conversion

[Wim Hagen]

Dear Xiaodong,

The only way to get stuck with EMI images is by collecting data manually with TIA software. TIA has an option to batch-convert a folder of EMI files to TIF.
As mentioned by others there are many programs that will convert the accompanying SER files to MRC but this just leads to unnecessary data storage of double the data.

Another option for future data collection could be to collect with SerialEM: you can still collect manually but can also add a bit of (semi) automation to e.g. minimize image drift, autofocus, take image and save it.
This will be saved in TIF or MRC format with all metadata possibly needed later in a text file. When you have a Falcon camera: it also supports frames with a nice setup dialog and the frames are saved in 16 bit MRC stacks instead of the seven 32 bit raw images from FEI.

EMI file format was developed to store multiple detector data in ESvision from EMIspec (later acquired by FEI, currently http://appfive.com), one of the first programs many years ago that was able to integrate data collection and data storage of e.g. stem, eels and eds  data from different detector hardware vendors in one file, stuff made for material scientists, quite revolutionary 20 years ago, but fairly useless for cryo-EM imaging nowadays where MRC seems to be preferred by many.

Best,

Wim Hagen
EMBL Heidelberg

> On Mar 14, 2014, at 0:11, Xiaodong Yan <xyan at ucsd.edu> wrote:
> 
> Dear Colleagues,
> 
> does anybody know which program can convert FEI EMI format image to MRC format image?
> 
> thank you very much!
> 
> xiaodong
> 
> -- 
> Xiaodong Yan, Ph.D.
> University of California, San Diego
> Department of Chemistry and Biochemistry
> 9500 Gilman Drive, NSB 4107, MC-0378
> La Jolla, CA, 92093-0378
> (858) 534-5852
> 
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