highFilter-methods {xps} | R Documentation |
This method initializes the Upper Threshold Filter.
The cutoff
value defines the upper threshold for allowed expression levels. If e.g.
the number of samples exceeding this cutoff value is greater than parameter
then the
corresponding dataframe row is flagged, i.e. flag = 0
.
The Upper Threshold Filter flags all rows with: flag = (sum(expression[i] <= cutoff) >= parameter)
Usage
highFilter(object)
highFilter(object, value)<-
object |
object of class PreFilter . |
value |
character vector c(cutoff, parameter, condition) . |
The method highFilter
initializes the following parameters:
cutoff : | the upper threshold level for the filter. | |
parameter : | this value depends on the condition used: |
|
condition : | condition="samples" : number of samples (default): |
|
condition="percent" : percent of samples. |
||
condition="mean" : mean value of samples. |
||
condition="percentile" : percentile of samples. |
An initialized PreFilter
object.
Christian Stratowa
prefltr <- PreFilter() highFilter(prefltr) <- c(14.5,75.0,"percent") str(prefltr)