config_recovery_visium.yml

default :
  Input :    
    Discovery dataset name : "Carcinoma"
    Recovery dataset name : "VisiumBreast"
    Input Visium directory : "example_data/VisiumBreast"
    #Path to a file containing the precomputed cell fractions for the visium array
    Recovery cell type fractions : "NULL" 
    Background cell type : "Epithelial.cells"
    CIBERSORTx username : "<Please use your username from the CIBERSORTx website>"
    CIBERSORTx token : "<Please obtain a token from the CIBERSORTx website>"
    
  Output :
    Output folder : "VisiumOutput"
    
  Pipeline settings :
    Number of threads : 10
    CIBERSORTx fractions Singularity path : NULL