Showing NA in certain cell types while applying ImSig on scRNA-seq data

[denoqo]

Hi Ajit,

I met some problem while applying ImSig on scRNA-seq data with the ImSig R-package. The input data I was using is PBMC scRNA-seq data (scran normalize). (~10K cells)

I don't why the T-cell columns is all NA. There should be T-cell in PBMC data.

Here are screenshot of the result:

Thank you for your time!

[denoqo]

Until I tried to lower the correlation threshold to 0.2, I got the T cell showed up. But the results doesn't look well. (The data are CPM normalized and scaled.)

[ajitjohnson]

Resolved outside of github