add DNA sequence motifs to ggplot
Inspired by, and letters based on, seqLogo Bioconductor package.
Plots DNA sequence motif in ggplot2 framework.
Install using devtools::install_github (Not on CRAN).
Either create a standalone plot, or add a sequence logo at a specific position with a specific size into a ggplot.
library(ggmotif)
#> Loading required package: ggplot2
ggmotif_plot("ACGWRT")
Can also use position frequency matrix instead of character string:
mat = Biostrings::consensusMatrix("ACGWRT")
mat
#> [,1] [,2] [,3] [,4] [,5] [,6]
#> A 1 0 0 0 0 0
#> C 0 1 0 0 0 0
#> G 0 0 1 0 0 0
#> R 0 0 0 0 1 0
#> T 0 0 0 0 0 1
#> W 0 0 0 1 0 0
ggmotif_plot(mat)
Or add a sequence logo at a specific position with a specific size into a ggplot.
ggplot(data.frame(x = 1:5,y =1:5),aes(x=x,y=y)) + geom_line() +
ggmotif("ACGWRT", x.pos = 5.1, y.pos = 5.1, ht = 0.2, wt = 0.2) +
ggmotif_scale()
