I'm currently generating 3D graphs in R using the persp-command. To change the viewpoint one has to set the parameters theta and phi. To evaluate (a good viewpoint on) the graph, one has to try lots of combinations for these parameters.
I was wondering if one can define an interactive output device that allows to rotate the graph using the mouse. It would be also nice if this device gives the current values for theta and phi.
Is there such a device/package?
See the rgl package: http://cran.r-project.org/web/packages/rgl/index.html
It won't report the theta and phi values you need, IIRC (though see #Dieter's comment below for a solution to this), but you can use rgl.snapshot() or rgl.postscript() to grab the current display as a bitmap or vector image. The package has persp3d() which is very similar to persp().
See the package rggobi http://cran.r-project.org/web/packages/rggobi/index.html
For data visualisation in 3 or even more dimensions, try the package rggobi which makes use of the program ggobi. It is possible to manipulate the data using the mouse, "brush" data, identify points in the data all while visualizing in a number of dimensions.
Related
I want to plot the recorded path of an object such as a plane or drone in 3d space using R. The plotted path should be represented by a flat “ribbon” whose orientation perpendicular to the direction of travel changes to reflect the roll of the object. In other words, I want to be able to visualize the path and orientation of the object in one "ribbon" as it banks in turns.
As far as as I can tell, a traditional ribbon plot in R won't allow you to change the orientation in a third dimension.
Matlab and Python have functionality for creating quiver plots where arrows may be placed to indicate the xyz orientation of the object at a given point in time along the path. I cannot find any R packages with similar functionality.
I have played with Plot3D, Plotrgl, Plot3Drgl and cannot find a package that has this capability.
Q1: Are there any packages in R that would support this type of plot?
Q2: If there isn't, how can I go about creating this type of plot R?
Below are examples in Python and Matlab for the 3D quiver type plots, as well as an image demonstrating the ribbon concept I am imagining.
https://medium.com/analytics-vidhya/exploring-data-acquisition-and-trajectory-tracking-with-android-devices-and-python-9fdef38f25ee
Example of 3D quiver plot in python
https://github.com/xioTechnologies/Gait-Tracking-With-x-IMU
Example of 3D quiver plot in matlab
This is an example of what the "ribbon" would look like
Thanks for any help!
I was trying to allow the user to give a curve as input for some analysis. Is there a package that can be used in this regard? Basically, a GUI like paint wherein the user can draw a simple curve and which would be stored in R as a set of data points or as an equation if its a simple curve.
Thanks
Gopher
Reading mouse input
Below is a list of sample approaches to first the problem, from the most complex to simplest (IMHO).
I would recommend that you have a look at the
qtpaint
package.
Less laborious solution may involve looking at the way interactive
plots in Shiny are handled. Using the click option would
enable you to get the mouse cursor position. Together with the Shiny
framework this would provide a convenient wrapper to get mouse input
from a user.
Finally, third approach could rely on making use of the locator function available in the graphics package. Depending on what you intend to do, this may be the simplest solution as you could then use read values to inform generation of your graphic.
Generating graphics
Assuming that you got your values via the locator functionality you could attempt to draw your line using segments. It would be a little fiddly as you would have to translate your coordinates to some placement of the dot in your desired chart but this wouldn't computationally too taxing, just a matter of bring mouse pointer values to some x/y values on the chart.
If you care to update your post with a sample code and reproducible attempts of your previous work, I bet the question will receive more replies. You may find this discussion on making a reproducible example in R helpful.
Do you know if it exist libraries or functions in R to plot voxel objects (3D array)?
I found the package rgl that can perform 3d scatter plot, but I am really looking for an equivalent of the function "image" that works with 3D array.
Thanks
Here is a basic example of something using the rgl package. You can easily make it into a function that operates on a 3D array to alter the colour, alpha or other features of interest.
library(rgl)
cubit=cube3d(color="blue", alpha=0.3)
cubit$vb[cubit$vb == -1]= 0
gridx=0:5;gridy=0:5;gridz=0:5
temp=cubit
plot3d(temp,box=FALSE,axes=FALSE,xlab="",ylab="",zlab="")
wire3d(temp,add=TRUE,color="blue",alpha=1)
for(ix in gridx){
for(iy in gridy){
for(iz in gridz){
temp$vb[1,]=cubit$vb[1,]+ix
temp$vb[2,]=cubit$vb[2,]+iy
temp$vb[3,]=cubit$vb[3,]+iz
shade3d(temp,add=TRUE,,alpha=runif(1))
wire3d(temp,add=TRUE,color="blue")
}
}
}
I have used something like this, but I have noted that the memory size grows very quickly (I cannot do more than 60000 voxels, using 3-4Gb RAM). I have tried something similar using cube3D from the plot3D package thinking that a non-interactive plot would (should!) be more memory efficient, but for some reason this package had worse performance (only 1000 voxels). If you have a solid cube, then you can be much smarter about only plotting the outer edges using a ploygon3D plot ... but that is not my case. I am still searching for better performance using R functionality, but thought I should add to this conversation in case of any other wandering souls who cross paths here too.
I am trying to render 739455 data point on a graph using R, but on the x-axis I can not view all those numbers, is there a way I can do that?
I am new to R.
Thank you
As others suggested, try hist, hexbin, plot(density(node)), as these are standard methods for dealing with more points than pixels. (I like to set hist with the parameter breaks = "FD" - it tends to have better breakpoints than the default setting.)
Where you may find some joy is in using the iplots package, an interactive plotting package. The corresponding commands include ihist, iplot, and more. As you have a Mac, the more recent Acinonyx package may be even more fun. You can zoom in and out quite easily. I recommend starting with the iplots package as it has more documentation and a nice site.
If you have a data frame with several variables, not just node, then being able to link the different plots such that brushing points in one plot highlights them in another will make the whole process more stimulating and efficient.
That's not to say that you should ignore hexbin and the other ideas - those are still very useful. Be sure to check out the options for hexbin, e.g. ?hexbin.
I'm trying to make a visualization that looks like this http://www.gradient-da.com/img/temperature%20surface%20plot%20470x406.JPG http://www.gradient-da.com/img/temperature%20surface%20plot%20470x406.JPG.
The idea is to have a 3D surface plot overlapping a 2d representation of a surface.
I can build arbitrary surfaces/polygon shapes (as in http://addictedtor.free.fr/graphiques/graphcode.php?graph=135 ) and I can make the respective 2D plot. What I don't seem to be able to figure out is the way to put them together in a nice way (like the one shown in the jpg above).
I've tried googling for the answer, but I wasn't able to find anything similar done in R.
Any help would be greatly appreciated!
EDIT: The 2D portion is not a projection of the 2D one. I chose this specific picture to illustrate this. For example
Here the 2D portion is the image of the circuit and on the 3D portion is the temperature).
In 2D you can have the map of a city and in 3D the traffic
etc...
Best,
Bruno
I will give a theoretical Idea,
In the same 3D plot, select a plane perpendicular to the 3D surface (just below the 3D-surface) and project all the values to it. Instead of 2D & 3D plot, you will use only a 3D plot, which also plots your surface.
HTH
It looks like the 2D plot is a layout of a microelectronic circuit, albeit with some detail skipped, and the 3D plot is perhaps a thermal plot of the same circuit.
I don't know enough about R's capabilities, but I imagine it would be easier to generate the two plots separately with R from the same dataset which represents the layout information (but with and without the thermal data) and then combine them with a graphics manipulation program.
No help in R, but you can do something similar in ROOT as seen in this image:
taken from the THistPainter class documentation.
The code is open source and could be examined if wanted for reimplementation.
Maybe you should try to make an opengl texture out of your 2d picture and map it on a 3d polygon to be included in your scenegraph?
Don't really understand if you wish to do it with R specifically, so maybe diving in opengl is a too low level for you. In case you'd be ready for that, you may reuse a simple java library that simplify plotting 3d surface: http://code.google.com/p/jzy3d
Hope that helps,
Martin
What you're looking for is called a texture map -- and if it's not provided in the R graphics package, you may be able to do it "by hand". The suggestion below may not be fast or convenient (or even helpful, as I'm not really familiar with R), but it may actually work...
Since you know you can draw a 3D surface plot with specified colors, you can try drawing a flat 3D surface using the colors of your image.
If R also lacks methods for extracting its data from image formats, there is an image format called PPM (standing for Portable PixMap), one variant of which is basically space-separated decimal numbers. After converting your image to this format (using Photoshop, say, or some dedicated image conversion program), it should be relatively easy to input into R.