plotNucmerCoords: Plot 'dotplot' of two sequences.

In daewoooo/primatR: What the Package Does (TODO)

Plot 'dotplot' of two sequences.

Description

This function specifically plots matched region of two sequences based on nucmer results.

Usage

plotNucmerCoords(
  nucmer.coords = NULL,
  genome.coord = TRUE,
  highlight.pos = NULL,
  title = NULL,
  sd.track = NULL,
  shape = "segm"
)

Arguments

nucmer.coords	A coordinates from nucmer output. [RUN: nucmer –coords ...]
highlight.pos	A set of postions to be highlighted on the x-axis.
title	A character string to use as a title for the plot.
sd.track	A segmental dulication track to be highlight at the plot.
shape	A shape used to plot aligned sequences: Either 'segm' or 'point'.
genome.coords	Set to TRUE if you want to work in genomic coordinates.

Value

A ggplot object.

Author(s)

David Porubsky

daewoooo/primatR documentation built on Oct. 22, 2024, 9:41 p.m.