chordPlotFunc: Core Plotting Function Collection
In ggchord: Multi-Sequence 'BLAST' Alignment Chord Diagram Visualization Tool

chordPlotFunc

R Documentation

Core Plotting Function Collection

Description

Contains core functions for integrating graphic elements and generating the final ggplot2 object.

Integrates all graphic elements to generate the final chord plot

Usage

chordPlotFunc(
  allRibbon,
  ribbon_alpha,
  ribbon_color_scheme,
  ribbon_colors,
  show_legend,
  gene_polys,
  gene_pal,
  gene_color_scheme,
  final_gene_order,
  seqArcs,
  gene_arrows,
  gene_label_show,
  gene_label_size,
  show_axis,
  axisLines,
  axisTicks,
  axisLabelOrientation,
  seq_colors,
  seq_labels,
  seqs,
  extremes,
  panel_margin,
  title
)

Arguments

`allRibbon`	Ribbon data (data.frame)
`ribbon_alpha`	Ribbon transparency
`ribbon_color_scheme`	Ribbon color scheme
`ribbon_colors`	Ribbon color parameters
`show_legend`	Whether to display the legend
`gene_polys`	Gene arrow polygon data
`gene_pal`	Gene color vector
`gene_color_scheme`	Gene color scheme
`final_gene_order`	Order of genes in the legend
`seqArcs`	Sequence arc data
`gene_arrows`	Gene label data
`gene_label_show`	Whether to display gene labels
`gene_label_size`	Font size of gene labels
`show_axis`	Whether to display axes
`axisLines`	Axis line data
`axisTicks`	Tick mark data
`axisLabelOrientation`	Orientation of axis labels
`seq_colors`	Sequence color vector
`seq_labels`	Sequence labels
`seqs`	List of sequence IDs
`extremes`	Plot extrema (min/max coordinates)
`panel_margin`	Panel margins
`title`	Plot title