EMA (version 1.4.3)

expFilter: Filter expression data

Description

This function takes an expression matrix and filtered out non detected genes.

Usage

expFilter(data, threshold = 3.5, p=0.01, graph = TRUE)

Arguments

data

expression matrix, genes on rows and samples on columns.

threshold

minimal value of expression to be reached

p

keep probes with at least p*ncol(data) samples higher than threshold

graph

boolean indicating if an histogram of the data should be plotted.

...

Arguments to be passed to methods, such as graphical parameters (see 'par').

Value

• An expression matrix.

Details

The non variant genes are defined gy the threshold value. A gene is kept if at least p*ncol(data) of its values is higher than threshold.

The graph represents the distribution of all the genes in Data. A line shows the threshold value used.

Examples

data(marty)
expFilter(marty, threshold = 3.5, graph = TRUE)