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Create plotting legend data frame from a Pedigree

Source: R/ped_to_legdf.R
ped_to_legdf.Rd

Convert a Pedigree to a legend data frame for it to be plotted afterwards with plot_fromdf().

Usage

# S4 method for class 'Pedigree'
ped_to_legdf(
  obj,
  boxh = 1,
  boxw = 1,
  cex = 1,
  adjx = 0,
  adjy = 0,
  lwd = par("lwd"),
  precision = 4
)

Arguments

obj

A Pedigree object

boxh

Height of the polygons elements

boxw

Width of the polygons elements

cex

Character expansion of the text

adjx

default=0. Controls the horizontal text adjustment of the labels in the legend.

adjy

default=0. Controls the vertical text adjustment of the labels in the legend.

lwd

default=par("lwd"). Controls the bordering line width of the elements in the legend.

precision

The number of significatif numbers to round the numbers to.

Value

A list containing the legend data frame and the user coordinates.

Details

The data frame contains the following columns:

  • x0, y0, x1, y1: coordinates of the elements

  • type: type of the elements

  • fill: fill color of the elements

  • border: border color of the elements

  • angle: angle of the shading of the elements

  • density: density of the shading of the elements

  • cex: size of the elements

  • label: label of the elements

  • tips: tips of the elements (used for the tooltips)

  • adjx: horizontal text adjustment of the labels

  • adjy: vertical text adjustment of the labels

All those columns are used by plot_fromdf() to plot the graph.

Examples

data("sampleped")
pedi <- Pedigree(sampleped)
leg_df <- ped_to_legdf(pedi)
summary(leg_df$df)
#>       id                  x0              y0               x1     
#>  Length:24          Min.   :0.000   Min.   :0.0000   Min.   : NA  
#>  Class :character   1st Qu.:1.000   1st Qu.:0.8333   1st Qu.: NA  
#>  Mode  :character   Median :3.099   Median :2.1670   Median : NA  
#>                     Mean   :2.716   Mean   :1.9376   Mean   :NaN  
#>                     3rd Qu.:4.244   3rd Qu.:2.8752   3rd Qu.: NA  
#>                     Max.   :5.244   Max.   :4.0000   Max.   : NA  
#>                                                      NA's   :24   
#>        y1          type               fill              border         
#>  Min.   : NA   Length:24          Length:24          Length:24         
#>  1st Qu.: NA   Class :character   Class :character   Class :character  
#>  Median : NA   Mode  :character   Mode  :character   Mode  :character  
#>  Mean   :NaN                                                           
#>  3rd Qu.: NA                                                           
#>  Max.   : NA                                                           
#>  NA's   :24                                                            
#>      angle        density         cex           label          
#>  Min.   : NA   Min.   : NA   Min.   :1.000   Length:24         
#>  1st Qu.: NA   1st Qu.: NA   1st Qu.:1.000   Class :character  
#>  Median : NA   Median : NA   Median :1.000   Mode  :character  
#>  Mean   :NaN   Mean   :NaN   Mean   :1.068                     
#>  3rd Qu.: NA   3rd Qu.: NA   3rd Qu.:1.000                     
#>  Max.   : NA   Max.   : NA   Max.   :1.500                     
#>  NA's   :24    NA's   :24    NA's   :2                         
#>      tips                adjx         adjy   
#>  Length:24          Min.   :0    Min.   :1   
#>  Class :character   1st Qu.:0    1st Qu.:1   
#>  Mode  :character   Median :0    Median :1   
#>                     Mean   :0    Mean   :1   
#>                     3rd Qu.:0    3rd Qu.:1   
#>                     Max.   :0    Max.   :1   
#>                     NA's   :11   NA's   :11  
plot_fromdf(leg_df$df, usr = c(-1,15,0,7))