quantFilter {doseR} | R Documentation

## quantFilter Function to filter expression data of a SummarizedExperiment object.

### Description

This function filters the expression of the supplied object; quantFilter is a filtering function used to remove rows (genes) of various expression data.

### Usage

    quantFilter (se, lo.bound=.25, hi.bound=.75, MEDIAN = FALSE,
    na.rm = TRUE)

### Arguments

`se` | A SummarizedExperiment object.
`lo.bound` | The lower cutoff, expressed as a percentage.
`hi.bound` | The upper cutoff, expressed as a percentage.
`MEDIAN` | Boolean, Calculate RowMeans or RowMedians.
`na.rm` | Boolean, NA removal.

### Details

This function filters the expression of the supplied object, based on a selected percentage cutoff.

### Value

Returns a filtered SummarizedExperiment object.

### Author(s)

AJ Vaestermark, JR Walters.

### References

The "doseR" package, 2018 (in press).

### Examples

    data(hmel.se)
    f_se <- quantFilter(se, lo.bound=0.5)

[Package doseR version 1.8.0 Index]