known_cancer_type paramter possible value?

abelson-lab / scATOMIC

Pan-Cancer Single Cell Classifier

MIT License

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known_cancer_type paramter possible value? #32

Open zhangj1115 opened 3 months ago

zhangj1115 commented 3 months ago

Hi, where can i get the create_summary_matrix() function's parameter known_cancer_type poossible value? for example, if my data if lung cancer, should i use known_cancer_type="lung cancer", or known_cancer_type="LUAD" or others ?

inofechm commented 3 months ago

Hi, The only thing the known cancer type parameter does is convert all cells predicted as any type of cancer cells to whatever your input into the parameter is. So it can be any label you want.