[R] MDS in 3D

[Atte Tenkanen]

...and my system is OSX 10.4.

Atte

> 
> > Hi,
> > 
> > I have tried to develop multidimensional scaling for 3D space 
> using 
> > PCA without success, yet;-) Is there some application ready in R?
> > 
> > Cheers,
> > 
> > Atte
> > 
> 
> I found xgobi, but when I try to run example I get some command not 
> found -errors.
> 
> Atte
> 
> 
> > data(morsecodes) ## from the XGobi/XGvis data, see  ?morsecodes
> > mc.row <- paste(morsecodes.row[,1],morsecodes.row[,2])
> > 
> > xgvis(dmat = morsecodes.dist,
> +       pos = morsecodes.pos,
> +       rowlab = mc.row,
> +       colors = morsecodes.colors,
> +       glyphs = morsecodes.glyphs,
> +       lines = morsecodes.lines,
> +       linecolors = morsecodes.linecolors)
> xgvis /tmp/RtmpDaR3cT/xgvis-6058ed8 & 
> > 
> > ##>   2) Show lines by hitting "l" with the mouse over the plot.
> > ##>   3) Examine morsecode labels by hitting "i" and mousing 
> around on the plot.
> > ##>   3b) Press "r" (on the plot) to switch 3D rotation in xgobi.
> > ##>   4) Run MDS in 3D by clicking "Run MDS" (in xgvis).
> > ##>   5) Speed up the optimization by increasing the "Stepsize" 
> with the slider.
> > ##>      The "Stress function" value may go as low as 0.1925 (MM).
> > ##>   6) When the optimization calms down, click "Run MDS" to 
> toggle MDS off.
> > ##>   7) Rotate the MDS configuration in 3D {by "r" with mouse 
> over plot}.
> > ##>   8) Increase the rotation speed with the slider in the top 
> left and
> > ##>      control the rotation direction by dragging the mouse on 
> the plot.
> > ##>   9) You can check out the initial configuration by
> > 
> > ## In order to have no color warning :
> > Mcolors <- unique(morsecodes.colors)
> /bin/sh: line 1: xgvis: command not found
> > (Mcolors <- paste("*brushColor", 0:(length(Mcolors)-1),": ", 
> Mcolors, sep=""))
> [1] "*brushColor0: SkyBlue" "*brushColor1: Green"  
> [3] "*brushColor2: Yellow"  "*brushColor3: HotPink"
> [5] "*brushColor4: Red"    
> > 
> > xgobi(morsecodes.pos, collab = morsecodes.col, rowlab = mc.row,
> +       colors = morsecodes.colors,
> +       glyphs = morsecodes.glyphs,
> +       lines  = morsecodes.lines,
> +       linecolors = morsecodes.linecolors,
> +       resources= c("*showLines: True", Mcolors))
> xgobi -title 'morsecodes.pos' -std mmx /tmp/RtmpDaR3cT/xgobi-
> mrscd56e509fe & 
> /bin/sh: line 1: xgobi: command not found
> > 
> > ##>      This XGobi window will be linked with
> > ##>      the XGvis window for glyph-color brushing and labeling.
>