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COO prediction function

coo_predict.Rd

Function for predicting COO using a normalized RNASeq dataset

Usage

coo_predict(norm_eset, model)

Arguments

norm_eset

A normalized ExpressionSet, as returned by coo_normalize

model

The fitted COO model.

Value

a data frame with three columns:

  • Sample names

  • LPS score prediction

  • COO class

Details

This function uses the model generated on the GOYA dataset to predict Cell of Origin on a normalized expression dataset. No subsetting needs to be performed, but the expression matrix must have either refseq (e.g. "geneID:7900") or ENSEMBL (e.g. ENSG....) gene IDs as the rownames