normalize {deepSNV} | R Documentation |
This functions performs a loess
normalization of the nucleotide. This experimental feature can
be used to compare experiments from different libraries or sequencing runs that may have differing noise characteristics.
Normalize nucleotide counts.
Normalize nucleotide counts.
normalize(test, control, ...) ## S4 method for signature 'matrix,matrix' normalize(test, control, round=TRUE, ...) ## S4 method for signature 'deepSNV,missing' normalize(test, control, ...)
test |
Either an |
control |
Missing if test is an |
... |
Parameters passed to |
round |
Logical. Should normalized counts be rounded to integers? Default=TRUE |
A deepSNV-class
object.
This feature is somewhat experimental and the results should be treated with care. Sometimes it can be better to leave the data unnormalized and use a model with greater dispersion instead.
Moritz Gerstung
data(phiX, package = "deepSNV") plot(phiX) phiN <- normalize(phiX, round = TRUE) plot(phiN)