motifbreakR (version 1.2.2)

plotMB: Plot a genomic region surrounding a genomic variant, and potentially disrupted motifs

Description

Plot a genomic region surrounding a genomic variant, and potentially disrupted motifs

Usage

plotMB(results, rsid, reverseMotif = TRUE, effect = c("strong", "weak"))

Arguments

results

The output of motifbreakR

rsid

Character; the identifier of the variant to be visualized

reverseMotif

Logical; if the motif is on the "-" strand show the the motifs as reversed FALSE or reverse complement TRUE

effect

Character; show motifs that are strongly effected c("strong"), weakly effected c("weak"), or both c("strong", "weak")

Value

• plots a figure representing the results of motifbreakR at the location of a single SNP, returns invisible NULL.

Details

plotMB produces output showing the location of the SNP on the chromosome, the surrounding sequence of the + strand, the footprint of any motif that is disrupted by the SNP or SNV, and the DNA sequence motif(s)

See Also

See motifbreakR for the function that produces output to be visualized here, also snps.from.rsid and snps.from.file for information about how to generate the input to motifbreakR function.

Examples

data(example.results)
example.results
plotMB(example.results, "rs2661839", effect = "strong")