normalize_pos_controls {NanoTube} | R Documentation |
Scale genes by the geometric mean of positive control genes. This step is conducted within processNanostringData, when normalization is set to "nCounter".
normalize_pos_controls(dat, logfile = "")
dat |
NanoString data, including expression matrix and gene dictionary. |
logfile |
Optional name of logfile to print messages, warnings or errors. |
NanoString data, with expression matrix now normalized by positive control gene expression.
example_data <- system.file("extdata", "GSE117751_RAW", package = "NanoTube") dat <- read_merge_rcc(list.files(example_data, full.names = TRUE)) # Positive controls are identified in the RCC files, and used to # normalize the data dat <- normalize_pos_controls(dat)