Re: [R] Creating DAGS with plate notation in R
Thanks Sacha. The code works well although, as you alluded, the plates are being drawn after some positional fine tuning. I was hoping that the plates could come out automatically as they do in graphviz. Possibly, whenever you get to it, your package can alleviate that. Cheers. On Thu, Aug 1, 2013 at 7:11 AM, Sacha Epskamp m...@sachaepskamp.com wrote: Here is a way to do it with qgraph. Requires lots of manual placement though. I have been asked before to write a package to do these kind of graphics automatically from R given some model. Might do it eventually :) library(qgraph) # Placement of nodes: Layout - matrix(c( 1,1, 2,1, 3,1, 4,1, 3,0),,2,byrow=TRUE) # Graph structure: E - matrix(c( 1,2, 2,3, 3,4, 5,4),,2,byrow=TRUE) # Labels: Lab - list(expression(alpha),expression(theta),expression(z),expression(w),expression(beta)) # Colors: Col - c(rep(white,4),gray) pdf(Model.pdf,width=6, height = 4) # Open plot: par(mar=c(0,0,0,0)) plot(1,type=n,xlim=c(0.5,5),ylim=c(-1,3)) # add graph: qgraph(E, layout = Layout, labels = Lab, color = Col, plot = FALSE, rescale = FALSE) # Add boxes: rect(1.6,0.4,4.6,2) rect(2.6, 0.6, 4.4, 1.6 ) # Add labels: text(3.1, 1.9, M) text(3.5, 1.5, N) dev.off() --- Sacha Epskamp, MSc Department of Psychological Methods University of Amsterdam Weesperplein 4, room 2.05 1018 XA Amsterdam The Netherlands http://www.sachaepskamp.com 2013/7/2 Raghu Naik naik.ra...@gmail.com The image did not come through as pointed out by a list member. I have attached a pdf image file; the link is http://stackoverflow.com/questions/3461931/software-to-draw-graphical-models-in-plate-notation . Cheers. Raghu On Tue, Jul 2, 2013 at 9:42 AM, Raghu Naik naik.ra...@gmail.com wrote: I am trying to create a directed graph with plate notation (like the one shown below) in R. [image: The output image] Could someone direct to me an example code that will get me started. I could not see any reference to plate notations in igraph, qgraph packages though I may be wrong. The above figure made in graphviz by a poster on stackoverflow. I am not sure if this can be replicated in Rgraphviz - I was not able to get there. I would appreciate any help. Thanks. Raghu __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Creating DAGS with plate notation in R
Here is a way to do it with qgraph. Requires lots of manual placement though. I have been asked before to write a package to do these kind of graphics automatically from R given some model. Might do it eventually :) library(qgraph) # Placement of nodes: Layout - matrix(c( 1,1, 2,1, 3,1, 4,1, 3,0),,2,byrow=TRUE) # Graph structure: E - matrix(c( 1,2, 2,3, 3,4, 5,4),,2,byrow=TRUE) # Labels: Lab - list(expression(alpha),expression(theta),expression(z),expression(w),expression(beta)) # Colors: Col - c(rep(white,4),gray) pdf(Model.pdf,width=6, height = 4) # Open plot: par(mar=c(0,0,0,0)) plot(1,type=n,xlim=c(0.5,5),ylim=c(-1,3)) # add graph: qgraph(E, layout = Layout, labels = Lab, color = Col, plot = FALSE, rescale = FALSE) # Add boxes: rect(1.6,0.4,4.6,2) rect(2.6, 0.6, 4.4, 1.6 ) # Add labels: text(3.1, 1.9, M) text(3.5, 1.5, N) dev.off() --- Sacha Epskamp, MSc Department of Psychological Methods University of Amsterdam Weesperplein 4, room 2.05 1018 XA Amsterdam The Netherlands http://www.sachaepskamp.com 2013/7/2 Raghu Naik naik.ra...@gmail.com The image did not come through as pointed out by a list member. I have attached a pdf image file; the link is http://stackoverflow.com/questions/3461931/software-to-draw-graphical-models-in-plate-notation . Cheers. Raghu On Tue, Jul 2, 2013 at 9:42 AM, Raghu Naik naik.ra...@gmail.com wrote: I am trying to create a directed graph with plate notation (like the one shown below) in R. [image: The output image] Could someone direct to me an example code that will get me started. I could not see any reference to plate notations in igraph, qgraph packages though I may be wrong. The above figure made in graphviz by a poster on stackoverflow. I am not sure if this can be replicated in Rgraphviz - I was not able to get there. I would appreciate any help. Thanks. Raghu __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Model.pdf Description: Adobe PDF document __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Re: [R] Creating DAGS with plate notation in R
The image did not come through as pointed out by a list member. I have attached a pdf image file; the link is http://stackoverflow.com/questions/3461931/software-to-draw-graphical-models-in-plate-notation . Cheers. Raghu On Tue, Jul 2, 2013 at 9:42 AM, Raghu Naik naik.ra...@gmail.com wrote: I am trying to create a directed graph with plate notation (like the one shown below) in R. [image: The output image] Could someone direct to me an example code that will get me started. I could not see any reference to plate notations in igraph, qgraph packages though I may be wrong. The above figure made in graphviz by a poster on stackoverflow. I am not sure if this can be replicated in Rgraphviz - I was not able to get there. I would appreciate any help. Thanks. Raghu graphics - Software to draw graphical models in plate notation - Stack Overflow _2013-07-02_11-23-35.pdf Description: Adobe PDF document __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
