plot_alignment: Plot Sequence Alignments

In ShawHahnLab/microsat: Computational, High-throughput Individual Identification through Microsatellite Profiling

Plot Sequence Alignments

Description

Plot an MSA alignment object.

Usage

plot_alignment(alignment, labels = NULL, include_blanks = FALSE, ...)

Arguments

alignment	MSA alignment object as produced by align_alleles, or character vector of the corresponding sequences.
labels	custom labels to draw for each entry in alignment. By default it's assumed that align_alleles was called with derep=TRUE and sequences are labeled by number of occurrences.
include_blanks	should blank sequences present in the alignment be included in the plot? FALSE by default. If TRUE and labels is left at the default, the extra axis labels will add up to a full count of the number of alleles observed.
...	additional arguments passed to dnaplotr::plotDNA.

Value

list of the sequence, sequence group, and label character vectors used in the plot.

See Also

align_alleles

ShawHahnLab/microsat documentation built on Aug. 25, 2023, 11:16 p.m.