mvFilter: Filter lines in the matrix of intensities w.r.t. some criteria
Description
Filters the lines of exprs() table with conditions on the number
of missing values.
The user chooses the minimum amount of intensities that is acceptable and
the filter delete lines that do not respect this condition.
The condition may be on the whole line or condition by condition.
Usage
mvFilter(obj, type, th, processText = NULL)
Arguments
obj
An object of class MSnSet containing
quantitative data.
type
Method used to choose the lines to delete.
Values are : "none", "wholeMatrix", "allCond", "atLeastOneCond"
th
An integer value of the threshold
processText
A string to be included in the MSnSet
object for log.
Value
An instance of class MSnSet that have been filtered.
Details
The different methods are :
"wholeMatrix": given a threshold th, only the lines that contain
at least th values are kept.
"allCond": given a threshold th, only the lines which contain
at least th values for each of the conditions are kept.
"atLeastOneCond": given a threshold th, only the lines that contain
at least th values, and for at least one condition, are kept.