viewpoly (version 0.4.1)

data_effects: Get effects information

Description

Get effects information

Usage

data_effects(
  qtl_info,
  effects,
  pheno.col = NULL,
  parents = NULL,
  lgs = NULL,
  groups = NULL,
  position = NULL,
  software,
  design = c("bar", "circle", "digenic")
)

Value

ggplot graphic

Arguments

qtl_info

data.frame with: LG - linkage group ID; Pos - position in linkage map (cM); Pheno - phenotype ID; Pos_lower - lower position of confidence interval; Pos_upper - upper position of the confidence interval; Pval - QTL p-value; h2 - herdability

effects

data.frame with: pheno - phenotype ID; qtl.id - QTL ID; haplo - haplotype ID; effect - haplotype effect value

pheno.col

integer identifying phenotype

parents

vector with parents ID

lgs

vector of integers with linkage group ID of selected QTL/s

groups

vector of integers with selected linkage group ID

position

vector of centimorgan positions of selected QTL/s

software

character defining which software was used for QTL analysis. Currently support for: QTLpoly, diaQTL and polyqtlR.

design

character defining the graphic design. Options: `bar` - barplot of the effects; `circle` - circular plot of the effects (useful to compare effects of different traits); `digenic` - heatmap plotting sum of additive effects (bottom diagonal) and digenic effects (top diagonal) when present