plot {ggmsa} | R Documentation

## plot method for SeqDiff object

### Description

plot method for SeqDiff object

### Usage

    ## S4 method for signature 'SeqDiff,ANY'
    plot(
      x,
      width = 50,
      title = "auto",
      xlab = "Nucleotide Position",
      by = "bar",
      fill = "firebrick",
      colors = c(A = "#ff6d6d", C = "#769dcc", G = "#f2be3c", T = "#74ce98"),
      xlim = NULL
    )

### Arguments

`x` | SeqDiff object
`width` | bin width
`title` | plot title
`xlab` | xlab
`by` | one of 'bar' and 'area'
`fill` | fill color of upper part of the plot
`colors` | color of lower part of the plot
`xlim` | limits of x-axis

### Value

plot

### Author(s)

guangchuang yu

### Examples

    fas <- list.files(system.file("extdata", "GVariation", package="ggmsa"),
                      pattern="fas", full.names=TRUE)
    x1 <- seqdiff(fas[1], reference=1)
    plot(x1)

[Package ggmsa version 1.0.0 Index]