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

diffcyt differential expression model with patient_id as random effect only returns NA p values #43

Open
singlecellfan opened this issue Jul 26, 2022 · 0 comments

Comments

@singlecellfan
Copy link

Hi,

I have followed the tutorial and so far all differential expression analyses worked if I did not specify a random variable.
This is how the ds_formula2 looks for me.

image

diffcyt(sce, formula = ds_formula2, contrast = contrast, analysis_type = "DS", method_DS = "diffcyt-DS-LMM", clustering_to_use = "merging_all", verbose = FALSE)

image

Has this occured before? I am not sure what the problem might be, as the differential expression works fine without specifying a random effect.

Thanks!

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant