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

In WaltersLab/doseR: doseR

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)

WaltersLab/doseR documentation built on June 24, 2024, 2:51 a.m.