[3dem] Exporting a montage map from SerialEM to a single MRC File

[Garry P Morgan]

Shujun,
One way to do this is in SerialEM:  while the map file is loaded on your monitor in SerialEM, you can “save to other” under the file drop down menu, and select mrc as the format you want. This should work for you, just make sure that the map is loaded at full resolution in SerialEM, and not binned.
cheers
Garry


On Feb 6, 2026, at 5:35 AM, 蔡舒君 via 3dem <3dem at ncmir.ucsd.edu> wrote:

[External email - use caution]

Dear Colleagues,

After collecting a map using SerialEM, the output file (map.mrc) contains multiple 2D images (e.g., 169 images with dimensions X × Y × Z = 1024 × 1024 × 1), along with the coordinate information for each image. When I open map.mrc in 3dmod, it appears as a single montage map (e.g., X × Y × Z = 12088 × 12088 × 1).

Could you please advise on how to save this single montage map as a single MRC file (e.g., 12088 × 12088 × 1)?


Best regards,
Shujun




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