| SCANT {speaq} | R Documentation |
SCAle, Normalize and Transform a data matrix
Description
This function allows the column-wise or row-wise scaling, normalization and transformation operations on a data matrix.
Usage
SCANT(data.matrix, type = "unit", feature_orientation = "columns")
Arguments
data.matrix |
the data matrix to be scaled, normalized or transformed. |
type |
the operations to be performed, this can be multiple and are performed sequentially. Any of 'unit', 'pareto', 'log10', 'log2', 'center', 'range', 'vast', or 'max' are accepted. |
feature_orientation |
default = "columns". This corresponds to the default feature matrix with samples as rows and features as columns. The other option is "rows": samples as columns and different features as different rows. |
Value
The scaled, normalized and/or transformed matrix.
Author(s)
Charlie Beirnaert, charlie.beirnaert@uantwerpen.be
References
van den Berg RA, Hoefsloot HCJ, Westerhuis JA, et al. Centering, scaling, and transformations: improving the biological information content of metabolomics data. BMC Genomics 2006; 7:142.
Examples
Samples <- 10
Features <- 20
data.matrix <- matrix(runif(n=Features*Samples, min=0,max=100),
ncol = Features, nrow = Samples)
changed_matrix = SCANT(data.matrix, type=c('pareto', 'center'), feature_orientation = 'columns')