8000 CARD reference free annotatioin · Issue #85 · YMa-lab/CARD · GitHub
[go: up one dir, main page]
More Web Proxy on the site http://driver.im/
Skip to content

CARD reference free annotatioin #85

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
Open
nsohail19 opened this issue Apr 17, 2025 · 1 comment
Open

CARD reference free annotatioin #85

nsohail19 opened this issue Apr 17, 2025 · 1 comment

Comments

@nsohail19
Copy link

Thank you so much for your work on this tool, I have enjoyed using it so far!

I have a question regarding the "reference free" version of deconvolution. In the documentation it is mentioned:

## One limitation of reference-free version of CARD is that the cell types inferred from CARDfree do not come with a cell type label. It might be difficult to interpret the results.

Is there no way to assign the actual names of the celltypes from the marker list to the resultant proportions dataframe? The labels of CT1, CT2, ..., etc change each time I run the tool. So it is difficult to manually assign the celltype labels - especially for smaller celltype populations.
@neuroedge
Copy link

I am also facing the same issue. Curious if there are any workarounds from the developers or community.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@neuroedge @nsohail19
0