Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Improve figures in cryodrgn analyze #219

Open
zhonge opened this issue Feb 8, 2023 · 2 comments
Open

Improve figures in cryodrgn analyze #219

zhonge opened this issue Feb 8, 2023 · 2 comments
Assignees
@zhonge

Comments

@zhonge
Copy link
Collaborator

zhonge commented Feb 8, 2023 •
edited
Loading

Color the kmeans20 samples by the default chimerax map colors
image

image

Include visualizations of the PC traversals:
image
image

image
image
@zhonge zhonge changed the title Improve plotting Improve figures in cryodrgn analyze Feb 8, 2023
@Guillawme
Copy link
Contributor

Excellent! 🤩
Could you also add this for graph traversals?

@zhonge zhonge self-assigned this Feb 10, 2023
zhonge added a commit that referenced this issue Feb 22, 2023
@zhonge
Improve and add figures in cryodrgn analyze #219
4089488
zhonge added a commit that referenced this issue Feb 22, 2023
@zhonge
Add a jupyter notebook for regenerating and customizing figures #219
bc07208
@zhonge
Copy link
Collaborator Author

zhonge commented Feb 28, 2023 •
edited
Loading

I added the above improvements to the figures and a new jupyter notebook which allows for customization in PR #228

Additional plots/visualizations on the wishlist:

  • Plot the latent embeddings vs. pose and CTF parameters. This is convenient for debugging (avoids having to run through the jupyter notebook)
  • Plots for graph traversal
  • Plot the latent embeddings vs. 3D classification label

@zhonge zhonge mentioned this issue Mar 2, 2023
Merged
zhonge added a commit that referenced this issue Mar 26, 2023
@zhonge
Improve and add figures in cryodrgn analyze #219
521a459
zhonge added a commit that referenced this issue Mar 26, 2023
@zhonge
Add a jupyter notebook for regenerating and customizing figures #219
f44a988
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@zhonge zhonge

Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@zhonge @Guillawme