Description Usage Arguments Value Author(s)
View source: R/CMString_classifier.R
classification of sample gene expression profiles into consensus molecular subtypes (CMS)
1 2 | classifyCMString(x, applylog = TRUE, mediancenter = TRUE, zScore = TRUE,
s.stat = "lambda.min", thresh = NULL)
|
x |
ExpressionSet object or gene expression matrix for samples (rows) and genes (columns) [default: none] |
applylog |
boolean specifying whether log2 transformation should be applied to the data [default: TRUE] |
mediancenter |
boolean specifying whether expression of single genes should be median centered [default: TRUE] |
zScore |
boolean specifying whether gene expression should be z-scored [default: TRUE] |
s.stat |
Value of the penalty parameter lambda at which prediction will be made [default: lambda.min] |
thresh |
minimum probability necessary for CMS call [default: NULL - the CMS with highest probability will be reported regardless of its probability] |
list with results
Robert Piskol
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