circos_tile: Write tiles of arbitrary categorical point data in circos.
In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

circos_tile

R Documentation

Write tiles of arbitrary categorical point data in circos.

Description

This function tries to make the writing circos tiles easier. Like circos_plus_minus() and circos_hist() it works in 3 stages, It writes out a data file using cfgout as a basename and the data from df in the circos histogram format into circos/data/bob_tile.txt It then writes out a configuration plot stanza in circos/conf/bob_tile.conf and finally adds an include to circos/bob.conf

Usage

circos_tile(
  cfg,
  df,
  colname = "logFC",
  basename = "",
  colors = NULL,
  thickness = 80,
  padding = 1,
  margin = 0,
  stroke_thickness = 0,
  orientation = "out",
  outer = 0.9,
  width = 0.08,
  spacing = 0
)

Arguments

`cfg`	Result from circos_prefix().
`df`	Dataframe with starts/ends and the floating point information.
`colname`	Name of the column with the data of interest. chromosome)
`basename`	Used to make unique filenames for the data/conf files.
`colors`	Colors of the data.
`thickness`	How thick to make the tiles in radial units.
`padding`	Space between tiles.
`margin`	How much space between other rings and the tiles?
`stroke_thickness`	Size of the tile outlines.
`orientation`	Facing in or out.
`outer`	Floating point radius of the circle into which to place the categorical data.
`width`	Width of each tile.
`spacing`	Radial distance between outer, inner, and inner to whatever follows.