dowser (version 2.5.1)

plotMSA: Simple function for plotting multiple sequence alignments input can be either nucleotide or AA and contain ambiguous characters

Description

Simple function for plotting multiple sequence alignments input can be either nucleotide or AA and contain ambiguous characters

Usage

plotMSA(
  data,
  id,
  seq,
  seq_type = c("nt", "aa"),
  text_size = 1.5,
  palette = NULL
)

Value

a ggplot2-formatted multiple sequence alignment plot

Arguments

data

Data table with sequences

id

column name of sequence IDs (order will be preserved)

seq

column name of sequence data to be plotted

seq_type

sequence type in seq column, nucleotide (nt) or amino acid (aa)

text_size

size of sequence alignment text

palette

named vector of color for each character type in alignment, otherwise default nt or aa palette will be used

See Also

getSeqPath