ObtainSampleScore_OriginalModel {TBSignatureProfiler} | R Documentation

## Obtain training data, testing data, and train signature's original model.

### Description

Obtain training data, testing data, and train signature's original model.

### Usage

    ObtainSampleScore_OriginalModel(
      theObject_train,
      useAssay,
      gene_set,
      input,
      SigName,
      obtainDiagnosis,
      annotationColName,
      FUN,
      adj
    )

### Arguments

`theObject_train` | A SummarizedExperiment object that has been prestored in the data file: OriginalTrainingData.
`useAssay` | A character string or an integer specifying the assay in the `input`. Used for the test SummarizedExperiment object. Default is 1, indicating the first assay in the test SummarizedExperiment object.
`gene_set` | A character vector that includes gene symbols for selected gene signature.
`input` | A SummarizedExperiment object with gene symbols as the assay row names.
`SigName` | Optional. A character string that indicates the name for `gene_set`. `SigName` is used to provide information when gene signatures were missing in the test data.
`obtainDiagnosis` | Boolean. Used to create training data if TRUE. Default is FALSE
`annotationColName` | A character string specifying the column name of disease status. Only used when creating training data. Default is NULL.
`FUN` | A character string specifying the function name of the corresponding signature's original model.
`adj` | A small real number used in combat to solve for genes with 0 counts in rare cases. Not required for most of cases.

### Value

The predicted score for each sample in the test study using corresponding gene signature's original model.

[Package TBSignatureProfiler version 1.4.11 Index]