plot_ly: Initiate a plotly visualization

Description Usage Arguments Details Value Author(s) References See Also Examples

View source: R/plotly_methods.R

Description

This function maps R objects to [plotly.js](https://plot.ly/javascript/), an (MIT licensed) web-based interactive charting library. It provides abstractions for doing common things (e.g. mapping data values to fill colors (via 'color') or creating [animation]s (via 'frame')) and sets some different defaults to make the interface feel more 'R-like' (i.e., closer to [plot()] and [ggplot2::qplot()]).

Usage

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plot_ly(
  data = data.frame(),
  ...,
  type = NULL,
  name = NULL,
  color = NULL,
  colors = NULL,
  alpha = NULL,
  stroke = NULL,
  strokes = NULL,
  alpha_stroke = 1,
  size = NULL,
  sizes = c(10, 100),
  span = NULL,
  spans = c(1, 20),
  symbol = NULL,
  symbols = NULL,
  linetype = NULL,
  linetypes = NULL,
  split = NULL,
  frame = NULL,
  width = NULL,
  height = NULL,
  source = "A"
)

Arguments

data

A data frame (optional) or [crosstalk::SharedData] object.

...

Arguments (i.e., attributes) passed along to the trace 'type'. See [schema()] for a list of acceptable attributes for a given trace 'type' (by going to 'traces' -> 'type' -> 'attributes'). Note that attributes provided at this level may override other arguments (e.g. 'plot_ly(x=1:10, y=1:10, color=I("red"), marker=list(color="blue"))').

type

A character string specifying the trace type (e.g. '"scatter"', '"bar"', '"box"', etc). If specified, it *always* creates a trace, otherwise

name

Values mapped to the trace's name attribute. Since a trace can only have one name, this argument acts very much like 'split' in that it creates one trace for every unique value.

color

Values mapped to relevant 'fill-color' attribute(s) (e.g. [fillcolor](https://plot.ly/r/reference#scatter-fillcolor), [marker.color](https://plot.ly/r/reference#scatter-marker-color), [textfont.color](https://plot.ly/r/reference/#scatter-textfont-color), etc.). The mapping from data values to color codes may be controlled using 'colors' and 'alpha', or avoided altogether via [I()] (e.g., 'color=I("red")'). Any color understood by [grDevices::col2rgb()] may be used in this way.

colors

Either a colorbrewer2.org palette name (e.g. "YlOrRd" or "Blues"), or a vector of colors to interpolate in hexadecimal "#RRGGBB" format, or a color interpolation function like 'colorRamp()'.

alpha

A number between 0 and 1 specifying the alpha channel applied to 'color'. Defaults to 0.5 when mapping to [fillcolor](https://plot.ly/r/reference#scatter-fillcolor) and 1 otherwise.

stroke

Similar to ‘color', but values are mapped to relevant ’stroke-color' attribute(s) (e.g., [marker.line.color](https://plot.ly/r/reference#scatter-marker-line-color) and [line.color](https://plot.ly/r/reference#scatter-line-color) for filled polygons). If not specified, 'stroke' inherits from 'color'.

strokes

Similar to 'colors', but controls the 'stroke' mapping.

alpha_stroke

Similar to 'alpha', but applied to 'stroke'.

size

(Numeric) values mapped to relevant 'fill-size' attribute(s) (e.g., [marker.size](https://plot.ly/r/reference#scatter-marker-size), [textfont.size](https://plot.ly/r/reference#scatter-textfont-size), and [error_x.width](https://plot.ly/r/reference#scatter-error_x-width)). The mapping from data values to symbols may be controlled using 'sizes', or avoided altogether via [I()] (e.g., 'size=I(30)').

sizes

A numeric vector of length 2 used to scale 'size' to pixels.

span

(Numeric) values mapped to relevant 'stroke-size' attribute(s) (e.g., [marker.line.width](https://plot.ly/r/reference#scatter-marker-line-width), [line.width](https://plot.ly/r/reference#scatter-line-width) for filled polygons, and [error_x.thickness](https://plot.ly/r/reference#scatter-error_x-thickness)) The mapping from data values to symbols may be controlled using 'spans', or avoided altogether via [I()] (e.g., 'span=I(30)').

spans

A numeric vector of length 2 used to scale 'span' to pixels.

symbol

(Discrete) values mapped to [marker.symbol](https://plot.ly/r/reference#scatter-marker-symbol). The mapping from data values to symbols may be controlled using 'symbols', or avoided altogether via [I()] (e.g., 'symbol=I("pentagon")'). Any [pch] value or [symbol name](https://plot.ly/r/reference#scatter-marker-symbol) may be used in this way.

symbols

A character vector of [pch] values or [symbol names](https://plot.ly/r/reference#scatter-marker-symbol).

linetype

(Discrete) values mapped to [line.dash](https://plot.ly/r/reference#scatter-line-dash). The mapping from data values to symbols may be controlled using 'linetypes', or avoided altogether via [I()] (e.g., 'linetype=I("dash")'). Any 'lty' (see [par]) value or [dash name](https://plot.ly/r/reference#scatter-line-dash) may be used in this way.

linetypes

A character vector of 'lty' values or [dash names](https://plot.ly/r/reference#scatter-line-dash)

split

(Discrete) values used to create multiple traces (one trace per value).

frame

(Discrete) values used to create animation frames.

width

Width in pixels (optional, defaults to automatic sizing).

height

Height in pixels (optional, defaults to automatic sizing).

source

a character string of length 1. Match the value of this string with the source argument in [event_data()] to retrieve the event data corresponding to a specific plot (shiny apps can have multiple plots).

Details

Unless 'type' is specified, this function just initiates a plotly object with 'global' attributes that are passed onto downstream uses of [add_trace()] (or similar). A [formula] must always be used when referencing column name(s) in 'data' (e.g. 'plot_ly(mtcars, x=~wt)'). Formulas are optional when supplying values directly, but they do help inform default axis/scale titles (e.g., 'plot_ly(x=mtcars$wt)' vs 'plot_ly(x=~mtcars$wt)')

Value

A plotly

Author(s)

Carson Sievert

References

<https://plotly-r.com/overview.html>

See Also

Examples

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## Not run: 
# plot_ly() tries to create a sensible plot based on the information you
# give it. If you don't provide a trace type, plot_ly() will infer one.
plot_ly(economics, x=~pop)
plot_ly(economics, x=~date, y=~pop)
# plot_ly() doesn't require data frame(s), which allows one to take
# advantage of trace type(s) designed specifically for numeric matrices
plot_ly(z=~volcano)
plot_ly(z=~volcano, type="surface")

# plotly has a functional interface: every plotly function takes a plotly
# object as it's first input argument and returns a modified plotly object
add_lines(plot_ly(economics, x=~date, y=~ unemploy / pop))

# To make code more readable, plotly imports the pipe operator from magrittr
economics %>%
    plot_ly(x=~date, y=~ unemploy / pop) %>%
    add_lines()

# Attributes defined via plot_ly() set 'global' attributes that
# are carried onto subsequent traces, but those may be over-written
plot_ly(economics, x=~date, color=I("black")) %>%
    add_lines(y=~uempmed) %>%
    add_lines(y=~psavert, color=I("red"))

# Attributes are documented in the figure reference -> https://plot.ly/r/reference
# You might notice plot_ly() has named arguments that aren't in this figure
# reference. These arguments make it easier to map abstract data values to
# visual attributes.
p <- plot_ly(iris, x=~Sepal.Width, y=~Sepal.Length)
add_markers(p, color=~Petal.Length, size=~Petal.Length)
add_markers(p, color=~Species)
add_markers(p, color=~Species, colors="Set1")
add_markers(p, symbol=~Species)
add_paths(p, linetype=~Species)

## End(Not run)

tidySingleCellExperiment documentation built on Nov. 8, 2020, 6:54 p.m.