fDataToUnknown: Update a feature variable

In lgatto/pRoloc: A unifying bioinformatics framework for spatial proteomics

Update a feature variable

Description

This function replaces a string or regular expression in a feature variable using the sub function.

Usage

fDataToUnknown(object, fcol = "markers", from = "^$", to = "unknown", ...)

Arguments

object	An instance of class MSnSet.
fcol	Feature variable to be modified. Default is "markers". If NULL, all feature variables will updated.
from	A character defining the string or regular expression of the pattern to be replaced. Default is the empty string, i.e. the regular expression "^$". See sub for details. If NA, then NA values are replaced by to.
to	A replacement for matched pattern. Default is "unknown". See sub for details.
...	Additional arguments passed to sub.

Value

An updated MSnSet.

Author(s)

Laurent Gatto

Examples

library("pRolocdata")
data(dunkley2006)
getMarkers(dunkley2006, "markers")
dunkley2006 <- fDataToUnknown(dunkley2006,
                              from = "unknown", to = "unassigned")
getMarkers(dunkley2006, "markers")

lgatto/pRoloc documentation built on Oct. 23, 2024, 12:51 a.m.