I'll agree with that: the biplot() is really messy. But, what do you
really want to know with your plot. I guess it's the angles between
your objects (variety) and your ethyl compounds. So, in my view, the
two graphs give the same answer, while the ggplot() one looks less
dense.
I'll keep your plot in mind since I tried a few weeks ago to plot a
RDA object and your plot could help out to polish my plot:
http://groups.google.com/group/ggplot2/browse_thread/thread/9db122bd461ce0e3
guillaume
On 2 nov, 13:47, Luciano Selzer <
luciano.sel...@gmail.com> wrote:
> Well that much is true. Howerer the default biplot it's really messy and I
> can't make out anything near the center. Also in the default biplot, arrows
> are multiplied by 0.8 so they are shorter
> Luciano
>
> 2010/11/2 Brandon Hurr <
bhiv...@gmail.com>
>
> > Maybe it's just me but I think that by scaling the way I did I over
> > exaggerated the positive side of PC1. The arrows seem to be pointing more
> > towards the right in the ggplot than they do in the biplot. I could be wrong
> > though.
>
> > Does anyone else think it's alright? I'll go with it if so.
>
> > Brandon
>
> > On Tue, Nov 2, 2010 at 17:32, Luciano Selzer <
luciano.sel...@gmail.com>wrote:
>
> >> I'm sorry, but the two graphs look pretty similar to me. I don't get what
> >> you are trying to do. Do you want to use secondary axes?
>
> >> Luciano
>
> >> 2010/11/2 Brandon Hurr <
bhiv...@gmail.com>
>
> >>> It appears that in my haste I left out a line of code. Thanks to Luciano
> >>> for pointing it out and shame on me for not clearing my workspace.
>
> >>> ucdpcaplot<-data.frame(UCDVol[,1:4], UCDPCA$scores[,1:3],
> >>> Ethylene=UCDVol[,colnum])
>
> >>> B
>
> >>> On Tue, Nov 2, 2010 at 15:33, Brandon Hurr <
bhiv...@gmail.com> wrote:
>
> >>>> I know this is probably going to be a hack because ggplot2 can't do
> >>>> multiple scales on the same axis but I'm curious about how others have got
> >>>> on. I'm having issues with the scaling. You get loadings and scores from
> >>>> princomp() and I've managed to get those and use geoms (point, segment, and
> >>>> text) to make a nice biplot, but I scaled the min/max of loadings to the
> >>>> min/max of the scores using rescale because you can't have two scales. I
> >>>> know this is wrong because the loadings in the ggplot2 output don't look the
> >>>> same as the biplot output, but I'm afraid I don't understand enough to know
> >>>> the proper way to scale them.
>
> >>>> Has anyone done biplots in ggplot before for principal component
> >>>> analysis?
>
> >>>> See attached code. Compare the biplot to the ggplot output to see what
> >>>> I'm on about.
>
> >>>> Any help is much appreciated.
>
> >>>> Brandon
>
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