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.

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

Summarize findings from consensus labels #970

Open
allyhawkins opened this issue Jan 2, 2025 · 0 comments
Open

Summarize findings from consensus labels #970

allyhawkins opened this issue Jan 2, 2025 · 0 comments
Assignees
Labels

Comments

@allyhawkins
Copy link
Member

If you are filing this issue based on a specific GitHub Discussion, please link to the relevant Discussion.

#853

Describe the goals of the changes to the analysis module.

After we have assigned consensus labels to all cells in ScPCA samples, we will want to summarize our findings. In particular, we want to know how many samples have cells that are labeled with a consensus cell type and not just labeled with "Unknown". For those samples, what cell types are identified?

What will your pull request contain?

I think we should create a notebook that reads in the table created in #969 and creates a few summary plots. Some ideas for plots that I have at this point:

  • Table summarizing how many samples in each project have cell types that are not "Unknown"
  • Distribution of cell types for samples where consensus cell types are identified

Will you require additional software beyond what is already in the analysis module?

No

Will you require different computational resources beyond what the analysis module already uses?

No

If known, when do you expect to file the pull request?

Probably next sprint, after we complete #969

@allyhawkins allyhawkins self-assigned this Jan 10, 2025
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
Projects
None yet
Development

No branches or pull requests

1 participant