xcms (version 1.48.0)

retcor-methods: Correct retention time from different samples

Description

To correct differences between retention times between different samples, a number of of methods exist in XCMS. retcor is the generic method.

Arguments

object

xcmsSet-class object

method

Method to use for retention time correction. See details.

...

Optional arguments to be passed along

Value

An xcmsSet object with corrected retntion times.

Methods

object = "xcmsSet"

retcor(object, ...)

Details

Different algorithms can be used by specifying them with the method argument. For example to use the approach described by Smith et al (2006) one would use: retcor(object, method="loess"). This is also the default.

Further arguments given by ... are passed through to the function implementing the method.

A character vector of nicknames for the algorithms available is returned by getOption("BioC")$xcms$retcor.methods. If the nickname of a method is called "loess", the help page for that specific method can be accessed with ?retcor.loess.

See Also

retcor.loess retcor.obiwarp xcmsSet-class,