Description Usage Arguments Details Value Author(s) References Examples
Returns glycans normalized with Quantile Normalization approach.
1 | quantilenorm(d, grouping = FALSE, transpose = FALSE)
|
d |
data frame in long format containing glycan measurements |
grouping |
should data be normalized per groups |
transpose |
transpose the data prior to normalization |
Input data frame should have at least the following three columns:
- gid - representing a unique name of a sample
- glycan - representing glycan names
- value - representing measured values
and if the grouping argument is TRUE
it should also have column:
- groups - representing groupings (e.g. IgG1, IgG2 and IgG4)
Returns a data.frame with original glycan values substituted by normalized ones
Ivo Ugrina, Lucija Klarić
Bolstad, B. M., Irizarry R. A., Astrand, M, and Speed, T. P.:
A Comparison of Normalization Methods for High Density Oligonucleotide
Array Data Based on Bias and Variance.
Bioinformatics 19(2), p. 185-193, 2003.
doi: 10.1093/bioinformatics/19.2.185
1 2 3 4 5 6 7 8 9 | data(mpiu)
if(requireNamespace("preprocessCore", quietly=TRUE)){
mpiun <- quantilenorm(mpiu)
head(mpiun)
# transpose (change) subjects and measurements
mpiunt <- quantilenorm(mpiu, transpose=TRUE)
head(mpiunt)
}
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