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Keep only genes with the highest variances

Source: R/data_preprocess.R
filter_by_variance.Rd

Keep only genes with the highest variances

Usage

filter_by_variance(exp, n = NULL, percentile = NULL)

Arguments

exp

A gene expression data frame with genes in row names and samples in column names or a `SummarizedExperiment` object.

n

Number of most variable genes (e.g., n=5000 will keep the top 5000 most variable genes).

percentile

Percentile of most highly variable genes (e.g., percentile=0.1 will keep the top 10 percent most variable genes). Values must range from 0 to 1.

Value

Expression data frame or `SummarizedExperiment` object with the most variable genes in row names and samples in column names.

Author

Fabricio Almeida-Silva

Examples

data(zma.se)
filt_exp <- filter_by_variance(zma.se, p=0.1)