color_patterns_set: Set up colors for patterns or points

In qtl2ggplot: Data Visualization for QTL Experiments

Set up colors for patterns or points

Description

Set up colors for patterns or points

Usage

color_patterns_set(
  scan1output,
  snpinfo,
  patterns,
  col,
  pattern,
  show_all_snps,
  col_hilit,
  drop_hilit,
  maxlod
)

Arguments

scan1output	output of linear mixed model for phename (see scan1)
snpinfo	Data frame with snp information
patterns	Connect SDP patterns: one of c("none","all","hilit").
col	Color of other points, or colors for patterns
pattern	allele pattern as of form AB:CDEFGH
show_all_snps	show all SNPs if TRUE
col_hilit	Color of highlighted points
drop_hilit	SNPs with LOD score within this amount of the maximum SNP association will be highlighted.
maxlod	Maximum LOD for drop of drop_hilit

Value

list of col and pattern.

qtl2ggplot documentation built on March 31, 2023, 6:06 p.m.