simpleFilter {doseR} | R Documentation

## simpleFilter Function to filter expression data of an object.

### Description

simpleFilter is a filtering function used to remove rows (genes) of various expression data.

### Usage

    simpleFilter(se, mean_cutoff=NULL, min_cutoff=NULL, median_cutoff=
    NULL, counts=TRUE)

### Arguments

`se` | A SummarizedExperiment object.
`mean_cutoff` | The lower cutoff, using mean.
`min_cutoff` | The cutoff, expressed as a minimum acceptable value.
`median_cutoff` | The cutoff, using a median value.
`counts` | Boolean, use raw counts data (default) or RPKM.

### Details

This function filters the expression of the supplied obj.

### 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 <- simpleFilter(se, mean_cutoff=0.5)

[Package doseR version 1.0.0 Index]