GitBook cryo-et PR?

[thorstenwagner]

Hi,

is it possible to make a PR for the https://ez-lab.gitbook.io/cryodrgn/cryodrgn-et-subtomogram-analysis tutorial?

I think there are several things not correct.

E.g. the first command:

(cryodrgn) $ cryodrgn downsample particles_from_M.star --datadir particleseries -D 128 -o particleseries/128

must be

(cryodrgn) $ cryodrgn downsample particles_from_M.star --datadir particleseries -D 128 -o particleseries/128.mrcs

Otherwise it crashes.

Best,
Thorsten

[michal-g]

Hi, thanks for bringing this to our attention — GitBook doesn't have an elegant way of submitting pull requests, so we will instead treat this issue as the pull request!

We are currently working on a new version of the GitBook, including better examples for cryo-ET analysis, but I'll make this update shortly, and leave this issue open until we complete our refresh of the GitBook material.

[thorstenwagner]

Ok, there is more :-)

Step 3:

(cryodrgn) $ cryodrgn parse_ctf_star particles_from_M.star -o pose.pkl -D 294 --Apix 1.7 

should be

(cryodrgn) $ cryodrgn parse_ctf_star particles_from_M.star -o ctf.pkl -D 294 --Apix 1.7 

[zhonge]

Thank you!!