subsetGeneSet {TBSignatureProfiler} | R Documentation |
A function used to subset gene expression value matrix based on certain gene sets.
subsetGeneSet( theObject, gene_set, useAssay, obtainDiagnosis = FALSE, annotationColName = NULL )
theObject |
A SummarizedExperiment object that has been prestored in the RData file: OriginalTrainingData. |
gene_set |
A character vector that includes gene symbols for gene signatures. |
useAssay |
A character string or an integer specifying the assay in the |
obtainDiagnosis |
Boolean. Usually 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. |
A matrix
with selected gene expression value if obtainDiagnosis == FALSE
.
If obtainDiagnosis == TRUE
, return a list
contains the selected
gene expression value and diagnosis results for each sample.