| lowFilter-methods {xps} | R Documentation |
This method initializes the Lower Threshold Filter.
The cutoff value defines the lower threshold for allowed expression levels. If e.g.
the number of samples lower than this cutoff value is greater than parameter then the
corresponding dataframe row is flagged, i.e. flag = 0.
The Lower Threshold Filter flags all rows with: flag = (sum(expression[i] >= cutoff) >= parameter)
Usage
lowFilter(object)
lowFilter(object, value)<-
object |
object of class PreFilter. |
value |
character vector c(cutoff, parameter, condition). |
The method lowFilter initializes the following parameters:
cutoff: | the lower 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. |
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condition="mean": mean value of samples. |
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condition="percentile": percentile of samples. |
An initialized PreFilter object.
Christian Stratowa
prefltr <- PreFilter() lowFilter(prefltr) <- c(4.0,3,"samples") str(prefltr)