Skip to content
This repository was archived by the owner on Apr 15, 2026. It is now read-only.

Simplified ecephys#8

Merged
CodyCBakerPhD merged 2 commits intomainfrom
simple_ecephys
Feb 6, 2026
Merged

Simplified ecephys#8
CodyCBakerPhD merged 2 commits intomainfrom
simple_ecephys

Conversation

@CodyCBakerPhD
Copy link
Copy Markdown
Owner

Showcase of very simple bare-bones frame pulling from 'deep' within corresponding video

Also setup streaming of processed ecephys file (I assume you don't need raw for the waveform plots?)

Also hard-coding asset paths rather than doing search. Could also just hard-code the S3 urls if you prefer

Copy link
Copy Markdown
Collaborator

@h-mayorquin h-mayorquin left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Sure, why not, feel free to do add the overlay it should be pretty easy.

The notebook is currently giving an error though:
line 1KeyError: "'mean_image' not found in Images 'SummaryImages'."

here:

summary_image = nwbfile.processing["ophys"]["SummaryImages"]["mean_image"].data

plt.figure(figsize=(10, 8))
plt.imshow(summary_image[:], cmap='gray')
plt.title('Mean Summary Image of Imaging Field')
plt.xlabel('X (pixels)')
plt.ylabel('Y (pixels)')
plt.colorbar(label='Intensity')
plt.tight_layout()
plt.show()

@CodyCBakerPhD
Copy link
Copy Markdown
Owner Author

line 1KeyError: "'mean_image' not found in Images 'SummaryImages'."

Yep that was resolved in #7

@CodyCBakerPhD CodyCBakerPhD merged commit f9c0df8 into main Feb 6, 2026
1 check passed
@CodyCBakerPhD CodyCBakerPhD deleted the simple_ecephys branch February 6, 2026 21:49
Sign up for free to subscribe to this conversation on GitHub. Already have an account? Sign in.

Labels

None yet

Projects

Status: Done

Development

Successfully merging this pull request may close these issues.

2 participants