plot_map_list: Plot a genetic map

In mmollina/MAPPoly: Genetic Linkage Maps in Autopolyploids

Plot a genetic map

Description

This function plots a genetic linkage map(s) generated by MAPpoly. The map(s) should be passed as a single object or a list of objects of class mappoly.map.

Usage

plot_map_list(
  map.list,
  horiz = TRUE,
  col = "lightgray",
  title = "Linkage group"
)

Arguments

map.list	A list of objects or a single object of class mappoly.map
horiz	logical. If FALSE, the maps are plotted vertically with the first map to the left. If TRUE (default), the maps are plotted horizontally with the first at the bottom
col	a vector of colors for each linkage group. (default = 'lightgray') ggstyle produces maps using the default ggplot color palette.
title	a title (string) for the maps (default = 'Linkage group')

Value

A data.frame object containing the name of the markers and their genetic position

Author(s)

Marcelo Mollinari, [e-mail]

References

Mollinari, M., and Garcia, A. A. F. (2019) Linkage analysis and haplotype phasing in experimental autopolyploid populations with high ploidy level using hidden Markov models, _G3: Genes, Genomes, Genetics_. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1534/g3.119.400378")}

Examples

 ## hexafake map
 plot_map_list(maps.hexafake, horiz = FALSE)
 plot_map_list(maps.hexafake, col = c("#999999", "#E69F00", "#56B4E9"))
 
 ## solcap map
 plot_map_list(solcap.dose.map, col = "ggstyle")
 plot_map_list(solcap.dose.map, col = "mp_pallet3", horiz = FALSE)
 

mmollina/MAPPoly documentation built on March 8, 2024, 2:04 a.m.