plotMSA: Simple function for plotting multiple sequence alignments...

In dowser: B Cell Receptor Phylogenetics Toolkit

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
)

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

Value

a ggplot2-formatted multiple sequence alignment plot

See Also

getSeqPath

dowser documentation built on Aug. 20, 2026, 5:06 p.m.