I have 3 datasets:
dataset A
dataset B
reference dataset
I want to use the reference dataset to label cell types for dataset A and dataset B. I am wondering if I can integrate dataset A with dataset B before using azimuth to label cell types, or if I should first use azimuth to label cell types in individual datasets. I am following the sctransform_v2_vignette in case that is relevant.
As a side question is there a recommended cutoff for the mapping score or predictive score returned by azimuth?
I have 3 datasets: dataset A dataset B reference dataset
I want to use the reference dataset to label cell types for dataset A and dataset B. I am wondering if I can integrate dataset A with dataset B before using azimuth to label cell types, or if I should first use azimuth to label cell types in individual datasets. I am following the sctransform_v2_vignette in case that is relevant.
As a side question is there a recommended cutoff for the mapping score or predictive score returned by azimuth?
Cheers