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The documentation for Ploty's R graphing library.

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plotly.r-docs

The documentation for Ploty's R graphing library.

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non-mapbox choropleth page

Revision on the non-mapbox choropleth page to match the corresponding python page: https://plot.ly/python/choropleth-maps/ plus
Aan example of featureidkey for Mapbox Choropleth.

Examples charts not showing

Hi,

The examples charts on the R plotly site no longer display (see line and scatter for example).

In the console it has the error TypeError: Plotly.plot is not a function. (In 'Plotly.plot(graphDiv, x)', 'Plotly.plot' is undefined)

Not sure if this is most or all charts, but the few pages I clicked through all have this issue.

default color scheme for plotly contour plot lines

when several plots are combined as subplot, plotly R contour plots use different colors for the contour lines (since an update some months ago). Sadly, after 5 different colors there seem to be no more available and the subplot cannot be created. How can the contour line colors be set to be the same for different subplots?
My example shows this issue when the "grouping variable" is set to "block": https://sae-interactive-data.ethz.ch/sae-eschikon-live/

curvature to the lines between nodes

Hello,

I have been testing your example (https://plotly.com/r/network-graphs/) and everything works perfectly.
However it would be nice to add some curvature to the lines between nodes (similar to other edge bundling plots)
I have a big dataset (+700 nodes) and some angle to curve the lines would make it easy to visualize the plot.
But I'm not sure how can be done with plotly?

Best regards,

Credential issue and lexical error for invalid character in json text.

Can't push plot from R using plot_ly::api_create(). Get the following error:

Error: lexical error: invalid char in json text.
                                       <html><head> <meta http-equiv="
                     (right here) ------^

In addition, warnings() produces this console output:

'/Users/robwiederstein/.plotly/.credentials': No such file or directory

These are appearing in spite of me setting environment variables for username and api key. More odd, is that plotly accepted the plot once--not sure why.

Missing mapbox choropleth docs in R

@TristanGa @sacul-git figured out how to make this work... @Mahdis-z can you sync up with them and get an R version of https://plot.ly/python/mapbox-county-choropleth/ up please? Plotly.R already supports plotly.js 1.49+ today so this isn't blocked.

p to fig

This kind of example:

p <- plot_ly(x = ~s, y = ~s) %>%  layout(xaxis = a, yaxis = a)
p

should be rewritten as

fig <- plot_ly(x = ~s, y = ~s) 
fig <- fig %>% layout(xaxis = a, yaxis = a)
fig

CI has SSL issues

@jdamiba can you try to get this CI job running again please? Something changed upstream I think. I messed around with it a bit but wasn’t able to make progress... reach out to @HammadTheOne or @sacul-git if you get stuck?

Suggestion: Add reference link for more information

Documentation and forum post for changes since 4.9.2

Basically this means porting over from the Python docs:

unified hover
range breaks
shape drawing

3D surface plots

There is no information whatsoever on how to format data to use in the plotly. The data from the example (volcano) has no description. Usual format are meshgrids with a z coordinates, or triplets x,y,z.
The documentation provides no clear way to transform typical acquisition data into the necessary format.

Impossible to rotate y-axis title

See the issue described here: https://stackoverflow.com/questions/40256793/rotate-axes-titles-with-ggplotly

Article for Exporting Static Image with Orca outdated.

Article under address ( https://plotly.com/r/static-image-export/ ) needs to be updated to reflect the deprecation of orca:

library(plotly)
 if (!require("processx")) install.packages("processx")
fig <- plot_ly(z = ~volcano) %>% add_surface()
orca(fig, "surface-plot.svg")

Warning message:
'orca' is deprecated.
Use 'kaleido' instead.
See help("Deprecated")

R version 4.1.0 (2021-05-18)
Platform: x86_64-w64-mingw32/x64 (64-bit)

other attached packages:
[1] reticulate_1.22 plotly_4.10.0 processx_3.5.2

dots overlay each other indepedent of 3D coordinates when size is specified

Hi,

I am making 3D plots and coloring the dots based on which cluster they belong to.
the issue only seems to arise when the size is specified.
It's difficult to illustrate with pictures since it is in 3D, but basically dots that are behind other dots in 3D, overlay dots in front of them.

#umap.3d is character vector of umap colnames in data
library(plotly)
p <-plot_ly(
  x = data[, umap.3d[1]],
  y = data[, umap.3d[2]],
  z = data[, umap.3d[3]],
  type="scatter3d",
  mode = "markers",
  size = 1,
  color = as.factor(data$kmeans_clustering)) %>%
  layout(
    title = "Clusters"
  );p

Pay attention to the pink and orange cluster down to the right. Here they are on top of all other dots.

After changing the angle you can see that they actually belong to another population far in the back.

Now without any size parameter.

p <-plot_ly(
  x = data[, umap.3d[1]],
  y = data[, umap.3d[2]],
  z = data[, umap.3d[3]],
  type="scatter3d",
  mode = "markers",
  color = as.factor(data$kmeans_clustering)) %>%
  layout(
    title = "pheno_clusters"
  );p

ggplot2 getting started still talks about chart studio

We should move https://plot.ly/ggplot2/getting-started/ and https://plot.ly/ggplot2/user-guide/ off of Chart Studio embeds and move them into this repo

plotly.express & px.parallel_categorie does not show the map and any info

I need to use plotly.express and px.parallel_categorie library but the code shows nothing, just a white screen (see attachment), where am I wrong. Or followed many online guides, installing and re-staging ploty. But nothing.

MY CODE in JUPYTERLAB

ggplotly setting graph size

This page says setting graph size: https://github.com/plotly/plotly.r-docs/blob/master/ggplot2/2021-08-04-setting-graph-size.Rmd

but it has nothing to do with setting the graph size. Setting graph size is something like ggplotly(p,height=300,width=300), but I cannot find the documentation for this.

When I set a custom height as specified above in a quarto document, sometimes the plot doesn't show. It's just blank.

mistake in example network graph

Hi! I run the network graph example, but it did not work for me. I fixed it by changing the code in the "create edges" section as

edge_shapes <- list()
for(i in 1:Ne) {

v0 <- es[i,]$V1
v1 <- es[i,]$V2

v0_index <- which(V(G)$name == v0)
v1_index <- which(V(G)$name == v1)

edge_shape = list(
type = "line",
line = list(color = "#030303", width = 0.3),
x0 = Xn[v0_index],
y0 = Yn[v0_index],
x1 = Xn[v1_index],
y1 = Yn[v1_index]
)

edge_shapes[[i]] <- edge_shape
}

library(plotly)
set.seed(123)

df <- diamonds[sample(1:nrow(diamonds), size = 1000),]

p <- ggplot(df, aes(cut, price, fill = cut)) + 
  geom_boxplot(outlier.shape = NA) + 
  ggtitle("Ignore outliers in ggplot2")

# Need to modify the plotly object and make outlier points have opacity equal to 0
fig <- plotly_build(p)

fig$data <- lapply(fig$data, FUN = function(x){
  x$marker = list(opacity = 0)
  return(x)
})

fig

it should be

library(plotly)
set.seed(123)

df <- diamonds[sample(1:nrow(diamonds), size = 1000),]

p <- ggplot(df, aes(cut, price, fill = cut)) + 
  geom_boxplot(outlier.shape = NA) + 
  ggtitle("Ignore outliers in ggplot2")

# Need to modify the plotly object and make outlier points have opacity equal to 0
fig <- plotly_build(p)

fig$x$data <- lapply(fig$x$data, FUN = function(x){
  x$marker = list(opacity = 0)
  return(x)
})

fig

Note the difference fig$x$data instead of fig$data otherwise this won't remove the outliers.

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