similar to: Redundancy canonical analysis plot problem in 3D using VEGAN, RGL, SCATTERPLOT3D and SFSMISC

Hi Guys, First, English is not my native language so sorry if the question is too difficult to understand. I can rephrase it if necessary. I have 32-bit Windows Xp SP3, i use R version 2.12.0 (2010-10-15), and the question is about Redundancy canonical analysis? plot problem in 3D using VEGAN, RGL, SCATTERPLOT3D and SFSMISC. I noticed the following? code to explain as clearly as possible the

We need to keep the discussion on the list. When I run your code, there are several problems. strain.data <- read.xlsx("Dee rhiz.xlsx", sheetName ="strain", header = T, row.names = 1) str(strain.data) # lists 9 columns at the end with all NAs strain.data1 <- (strain.data, sqrt.dist = TRUE) # this is not a valid R line. I get Error: unexpected ',' in

Hello Sir I am getting problem in plotting in CCA . Could you please help me? I wrote the below command but I don't know why it is taking only first 5 env data rather than all 9. > strain.data <- read.xlsx("Dee rhiz.xlsx", sheetName="strain", header = T, row.names = 1) > env.data <- read.xlsx("Dee rhiz.xlsx", sheetName="env", header = T,

Hi R experts, I'm looking for some help with plotting vectors from envfit in vegan, onto a 3d plot using ordiplot3d. So far I have data.mds <- metaMDS(data, k=3,trace = FALSE) vect_data<-envfit(data.mds,vegdata[,3:21],choices=1:3,permu=9999) ordiplot3d(data.mds,envfit=vect_data) ordixyplot(data.mds,pch=pts,envfit=vect_data) (my data's not really called data, I thought it might be

Dear List, I'm trying to draw vector in XYZ with rgl under use of a cylinder3d. Therefore I scale and rotate a basis-cylinder). However, somehow the rotation is wrong as verified by overplotting arrow3d(). Where is my mistake? library(heplots) library(rgl) # ... 2 vectors data=data.frame(row.names=c('X','Y','Z'), x1=c(2,1,5),y=c(4,3,2))

Hi, I am having an issue when creating a postscript file from RGL window. It seems to cut off some of the axis labels. Here is the code I am using. I created a 3D plot using RGL_0.71 with R 2.5 on Windows XP. z1<-c(5,4,1,4.5,2,3,2,1,1) z2<-c(6,8,7,7.5,5,3.5,4,1,1) z3<-c(3,2,4,7,3,4.5,6,2,3) x1<-seq(1,9) x2<-seq(1,9) x3<-seq(10,18) y1<-seq(8,0) y2<--1*y1

Hi All, Can anyone point me a hint (package) how to draw a 3D plot using the first 3 components from PCA? Thanks a lot, FD [[alternative HTML version deleted]]

Hi everybody, I want to do a contourplot in lattice with my raw data overlaid on it(xyplot) which seemed to be a very easy thing to do. I've tried it in many ways, but I haven't succeeded at obtaining it. let's say x, y, and z as the variables that comes from the data frame ''ex'': therefore my countourplot is as followed : contourplot(z ~ x * y, cuts=550) I

Hi everyone, Can anyone give me more details about the 'lp', 'risk', 'terms', and 'expected' options from the predict.coxph function? I actually found that risk is obtained from exp(lp). I can't find information on 'expected' type however. Is anybody can expand the information on this function? Thank you in advance, I will appreciate it.

Hello R experts, I've used metaMDS to run NMDS on some fish abundance data, and am also working on correlating environmental data to the NMDS coordinates. I'm fairly new to metaMDS and NMDS in general, so I have what are probably some very basic questions. My fish abundance data consists of 66 sites for which up to 20 species of fish were identified and counted. I ran metaMDS on this data

Hi all, I am considering writing a 3D visualisation package for R. Purposes: - Visualise 3 dimension data - Manipulate the data or series or any other object with the mouse as in any 3D software (3D Studio Max, Lightwave...) - Eventually display more than just 3D objects. Justification: - It's always interesting to plot data before performing any analysis - Manipulating (rotating,

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Is there any way to plot a 3-D scatter plot for two groups on one graph? Thanks, XINLI [[alternative HTML version deleted]]

Dear all; I've been trying to change the type of line used to draw the box around the 3d scatterplot (package scatterplot3d) from lty=1 to lty=2 without sucess. I would appreciate suggestions of how to do it. Thanks PM

I have a 3D scatterplot and would like to change the displayed range along the y-axis. for instance suppose I have: x = seq(0.2,0.7,0.01) y = seq(0.4,0.9,0.01) z = runif(51) scatterplot3d(x,y,z,xlim=c(0.2,0.7),ylim=c(0.4,0.9),zlim=c(0,1)) But would like the y-axis to read: 0.4, 0.5, 0.6, blank, blank, 1.0 Is there a way to issue an "axis" statement in the scatterplot3d? Also,

Hi, I was trying to make a 3D plot using densCols. The documentation for densCols doesn't look like it'll work for 3D. For example: ----------------------------------------- library(scatterplot3d) v1 <- rnorm(10000) v2 <- rnorm(10000) v3 <- rnorm(10000) ## 2D with denscols mat1 <- cbind(v1,v2) mcols1 <- densCols(mat1) plot(mat1,col=mcols1) mat <- cbind(v1,v2,v3)

Is there a way of repositioning the y label in scatterplot3d so that it is parallel with the y axis? Many thanks Richard

Dear all, I'm looking for a way to display text (label) in a scatterplot3d instead of the default dot. I mean someting like the text() function which can be associated with plot(). Do you think this is possible ? My second question is quite well covered by some threads but I haven't been able to find a definitive way of doing. Is there a way to enable rotation in a scatterplot3d ?

Dear Listers, I would be interested in representing a trend surface including an interaction term z = f(x,y,x.y) - eg the type of chart obtained with persp() or wireframe(), then adding datapoints as a cloud, ideally with dots which are under the surface in a color, and those who are above in another color. An other option would be to draw segments between the dots and the ground of the

Hi to all, I usually use R for simple 2D graphs so now I cannot solve the following problem (which I suppose very simple too). I'm using scatterplot3d. I want to add dotted lines parallel to the 3 axes, in order to create a sort of cage in the 3D box (so to represent subdomains in my dataspace). I saw that points3d can be used to draw points or lines to the existing plot but actually