bsseq_to_log_methy_ratio {NanoMethViz}R Documentation

Convert BSseq object to log-methylation-ratio matrix

Description

Creates a log-methylation-ratio matrix from a BSseq object that is useful for dimensionality reduction plots.

Usage

bsseq_to_log_methy_ratio(bsseq, regions = NULL, prior_count = 2)

Arguments

bsseq

the BSseq object.

regions

the regions to calculate log-methylation ratios over. If left NULL, ratios will be calculated per site.

prior_count

the prior count added to avoid taking log of 0.

Value

a matrix containing log-methylation-ratios.

Examples

nmr <- load_example_nanomethresult()
bsseq <- methy_to_bsseq(nmr)
regions <- exons_to_genes(NanoMethViz::exons(nmr))
log_m_ratio <- bsseq_to_log_methy_ratio(bsseq, regions)

[Package NanoMethViz version 2.0.0 Index]