Dear Yangqi,
Star file should be fine too. Helix ID I would not worry about, you might actually see defocus changes along helices as they might not be oriented flat in thicker ice. If the ice is thin, the sample can still have some pre-tilt and that's exactly what you want to solve for: individual helix tilt causing defocus changes along the helix.
Best,
Wim Hagen
EMBL Heidelberg
> On Aug 2, 2018, at 19:45, Yangqi Gu <[log in to unmask]> wrote:
>
> Dear all,
> I am trying to do a local CTF on my helical particles. I am using GCTF and noticed the input is .box file for particle coordinates? Since I used RELION to pick helix and my files are star file. Should I convert them to .box file? Or will it take star file as well? Also, the extract.star file specifies the helix ID, I am wondering how I am going to link my helical particles to the helix ID, so that the local CTF is estimated from the same helix?
> Best,
> Yangqi
>
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