bsseq_to_log_methy_ratio {NanoMethViz} | R Documentation |
Creates a log-methylation-ratio matrix from a BSseq object that is useful for dimensionality reduction plots.
bsseq_to_log_methy_ratio(bsseq, regions = NULL, prior_count = 2)
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. |
a matrix containing log-methylation-ratios.
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)