Sorry for bothering you again. I am running ecotyper to train my scRNA data, and some problems bothers me now.
For public or our own scRNA data, they don't have or have annotated celltype. For example, if I want to run Tutorial 2 in GEO cohort, and It has well-annotated celltype, but the major celltype, nor the minor celltype, can't be divided into the celltype presented in your example data exactly. It has celltype like "PVL", "cycling T-cells", and so on, thus making me confused about preparing the annotation files. Should I re-annotate the celltype? But I also found nowhere mentioned about celltype annotation.
I am so appreciated if I could get your help in preparing the annotation file of recoverying scRNA data step.
Sorry for bothering you again. I am running ecotyper to train my scRNA data, and some problems bothers me now.
For public or our own scRNA data, they don't have or have annotated celltype. For example, if I want to run Tutorial 2 in GEO cohort, and It has well-annotated celltype, but the major celltype, nor the minor celltype, can't be divided into the celltype presented in your example data exactly. It has celltype like "PVL", "cycling T-cells", and so on, thus making me confused about preparing the annotation files. Should I re-annotate the celltype? But I also found nowhere mentioned about celltype annotation.
I am so appreciated if I could get your help in preparing the annotation file of recoverying scRNA data step.
THANK YOU SO MUCH!!!