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You selected a categorical phenotype for the Phenotype labels parameter; however, the metric that you selected in the Metric for ranking genes parameter is used with continuous phenotypes. Select one of the following metrics for a  categorical phenotype:

  • Signal2Noise (default)
  • tTest
  • Ratio_of_Classes
  • Diff_of_Classes
  • log2_Ratio_of_Classes


For information about phenotypes, see Phenotype Labels in the GSEA User Guide.
For information about the metrics, see the Metric for ranking genes parameter on the Run GSEA Page in the GSEA User Guide.

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