g3Lollipop.options: G3Lollipop plot options

In g3viz: Interactively Visualize Genetic Mutation Data using a Lollipop-Diagram

G3Lollipop plot options

Description

G3Lollipop plot options

Usage

g3Lollipop.options(
  chart.width = 800,
  chart.type = "circle",
  chart.margin = list(left = 40, right = 20, top = 15, bottom = 25),
  chart.background = "transparent",
  transition.time = 600,
  y.axis.label = "# of mutations",
  axis.label.font = "normal 12px Arial",
  axis.label.color = "#4f4f4f",
  axis.label.alignment = "middle",
  axis.label.dy = "-2em",
  y.axis.line.color = "#c4c8ca",
  y.axis.line.style = "dash",
  y.axis.line.width = 1,
  y.max.range.ratio = 1.1,
  legend.margin = list(left = 10, right = 0, top = 5, bottom = 5),
  legend.interactive = TRUE,
  legend.title = NA,
  lollipop.track.height = 420,
  lollipop.track.background = "rgb(233,233,233)",
  lollipop.pop.min.size = 2,
  lollipop.pop.max.size = 12,
  lollipop.pop.info.limit = 8,
  lollipop.pop.info.color = "#EEE",
  lollipop.pop.info.dy = "0.35em",
  lollipop.line.color = "rgb(42,42,42)",
  lollipop.line.width = 0.5,
  lollipop.circle.color = "wheat",
  lollipop.circle.width = 0.5,
  lollipop.label.ratio = 1.4,
  lollipop.label.min.font.size = 10,
  lollipop.color.scheme = "accent",
  highlight.text.angle = "90",
  title.text = "",
  title.font = "normal 16px Arial",
  title.color = "#424242",
  title.alignment = "middle",
  title.dy = "0.35em",
  anno.height = 30,
  anno.margin = list(top = 4, bottom = 0),
  anno.background = "transparent",
  anno.bar.fill = "#e5e3e1",
  anno.bar.margin = list(top = 2, bottom = 2),
  domain.color.scheme = "category10",
  domain.margin = list(top = 0, bottom = 0),
  domain.text.font = "normal 11px Arial",
  domain.text.color = "#f2f2f2",
  brush = TRUE,
  brush.selection.background = "#666",
  brush.selection.opacity = 0.2,
  brush.border.color = "#969696",
  brush.handler.color = "#333",
  brush.border.width = 1,
  legend = TRUE,
  tooltip = TRUE,
  zoom = TRUE
)

Arguments

chart.width	chart width. Default 800.
chart.type	pie or circle. Default circle.
chart.margin	specify chart margin in _list_ format. Default list(left = 40, right = 20, top = 15, bottom = 25).
chart.background	chart background. Default transparent.
transition.time	animation transition time when clicking lollipop pops to show labels (in millisecond). Default 600.
y.axis.label	Y-axis label text. Default "# of mutations".
axis.label.font	css font style shorthand (font-style font-variant font-weight font-size/line-height font-family). Default "normal 12px Arial".
axis.label.color	axis label text color. Default #4f4f4f.
axis.label.alignment	axis label text alignment (start/end/middle). Default middle.
axis.label.dy	text adjustment of axis label text. Default -2em.
y.axis.line.color	color of y-axis in-chart lines (ticks). Default #c4c8ca.
y.axis.line.style	style of y-axis in-chart lines (ticks), "dash" or "line". Default dash.
y.axis.line.width	width of y-axis in-chart lines (ticks). Default 1.
y.max.range.ratio	ratio of y-axis range to data value range. Default 1.1.
legend.margin	legend margin in list. Default list(left = 10, right = 0, top = 5, bottom = 5).
legend.interactive	legend interactive mode. Default TRUE.
legend.title	legend title. If NA, factor.col in g3Lollipop is used. Default is NA.
lollipop.track.height	height of lollipop track. Default 420.
lollipop.track.background	background of lollipop track. Default rgb(244,244,244)
lollipop.pop.min.size	lollipop pop minimal size. Default 2.
lollipop.pop.max.size	lollipop pop maximal size. Default 12.
lollipop.pop.info.limit	threshold of lollipop pop size to show count information in middle of pop. Default 8.
lollipop.pop.info.color	lollipop pop information text color. Default #EEE.
lollipop.pop.info.dy	y-axis direction text adjustment of lollipop pop information. Default -0.35em.
lollipop.line.color	lollipop line color. Default rgb(42,42,42).
lollipop.line.width	lollipop line width. Default 0.5.
lollipop.circle.color	lollipop circle border color. Default wheat.
lollipop.circle.width	lollipop circle border width. Default 0.5.
lollipop.label.ratio	lollipop click-out label font size to circle size ratio. Default 1.4.
lollipop.label.min.font.size	lollipop click-out label minimal font size. Default 10.
lollipop.color.scheme	color scheme to fill lollipop pops. Default accent.
highlight.text.angle	pop-on-click highlight text angle. Default 90.
title.text	title of chart. Default is empty.
title.font	font of chart title. Default normal 16px Arial.
title.color	color of chart title. Default #424242.
title.alignment	text alignment of chart title (start/middle/end). Default middle.
title.dy	text adjustment of chart title. Default 0.35em.
anno.height	height of protein structure annotation track. Default 30.
anno.margin	margin of protein structure annotation track. Default list(top = 4, bottom = 0).
anno.background	background of protein structure annotation track. Default transparent.
anno.bar.fill	background of protein bar in protein structure annotation track. Default #e5e3e1.
anno.bar.margin	margin of protein bar in protein structure annotation track. Default list(top = 2, bottom = 2).
domain.color.scheme	color scheme of protein domains. Default category10.
domain.margin	margin of protein domains. Default list(top = 0, bottom = 0).
domain.text.font	domain label text font in shorthand format. Default normal 11px Arial.
domain.text.color	domain label text color. Default #f2f2f2.
brush	if show brush. Default TRUE.
brush.selection.background	background color of selection brush. Default #666.
brush.selection.opacity	background opacity of selection brush. Default 0.2.
brush.border.color	border color of selection brush. Default #969696.
brush.handler.color	color of left and right handlers of selection brush. Default #333.
brush.border.width	border width of selection brush. Default 1.
legend	if show legend. Default TRUE.
tooltip	if show tooltip. Default TRUE.
zoom	if enable zoom feature. Default TRUE.

Value

a list with g3Lollipop plot options

g3viz documentation built on Sept. 11, 2024, 9:25 p.m.