plotMotifMatch: Plot sequence logos of the position weight matrix of the...

In atSNP: Affinity test for identifying regulatory SNPs

Description

Plot the best matching augmented subsequences on the reference and SNP alleles. Plot sequence logos of the position weight matrix of the motif to the corresponding positions of the best matching subsequences on the references and SNP alleles.

Usage

plotMotifMatch(motif.match, motif.lib, cex.main = 2, ...)

Arguments

motif.match	a single row ofdtMotifMatch output in data.frame format
motif.lib	A list of position weight matrices
cex.main	The size of the main title.
...	Other parameters passed to plotMotifLogo.

Value

Sequence logo stacks: Reference subsequences, sequence logo of reference allele matching potision weight matrix, SNP subsequences, sequence logo of SNP allele matching potision weight matrix

Author(s)

Sunyoung [e-mail]

Examples

data(example)
plotMotifMatch(motif_match, motif.lib = motif_library)

atSNP documentation built on April 28, 2020, 6:50 p.m.