PCA plots
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@michael-benjamin-138
Last seen 7.7 years ago
Hi, all. Are there any plans to spice up the principal components analysis tools in R? Many commercial packages offer interactive manipulation of 3D biplots. We are almost there already, with a fast (if homely-looking) biplot in "princomp." Any takers? BTW, BioConductor is fabulous. I went from downloading the packages to array analysis in three weeks. Thanks, everyone. Michael Benjamin, MD Emory Winship Cancer Institute Atlanta, GA [[alternate HTML version deleted]]
Cancer Cancer • 1.1k views
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@anthony-rossini-10
Last seen 7.7 years ago
If you can get the SJava interface, you can do linked plots, brushing, and grand tours on scatterplots (i.e. principle components). The ROrca interface works pretty well these days, I just need more time to clean up the docs. best, -tony >>>>> "LG" == Laurent Gautier <laurent@cbs.dtu.dk> writes: LG> On Mon, Jan 27, 2003 at 11:29:39PM -0500, Michael Benjamin wrote: >> Hi, all. >> >> Are there any plans to spice up the principal components analysis tools >> in R? Many commercial packages offer interactive manipulation of 3D >> biplots. We are almost there already, with a fast (if homely- looking) >> biplot in "princomp." Any takers? LG> AFAIK, R can interface with ggobi. By linking selections of individuals LG> in different planes of projection, you should be able to achieve it LG> (and go beyond "only" 3 dimensions, if I understood what you meant LG> by "interactive manipulation"). LG> Check the screenshots at www.ggobi.org to get an idea. LG> Hopin' it helps, LG> L. LG> _______________________________________________ LG> Bioconductor mailing list LG> Bioconductor@stat.math.ethz.ch LG> http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor -- A.J. Rossini Rsrch. Asst. Prof. of Biostatistics U. of Washington Biostatistics rossini@u.washington.edu FHCRC/SCHARP/HIV Vaccine Trials Net rossini@scharp.org -------------- http://software.biostat.washington.edu/ ---------------- FHCRC: M: 206-667-7025 (fax=4812)|Voicemail is pretty sketchy/use Email UW: Th: 206-543-1044 (fax=3286)|Change last 4 digits of phone to FAX (my tuesday/wednesday/friday locations are completely unpredictable.)
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Laurent Gautier ★ 2.3k
@laurent-gautier-29
Last seen 7.7 years ago
On Mon, Jan 27, 2003 at 11:29:39PM -0500, Michael Benjamin wrote: > Hi, all. > > Are there any plans to spice up the principal components analysis tools > in R? Many commercial packages offer interactive manipulation of 3D > biplots. We are almost there already, with a fast (if homely- looking) > biplot in "princomp." Any takers? AFAIK, R can interface with ggobi. By linking selections of individuals in different planes of projection, you should be able to achieve it (and go beyond "only" 3 dimensions, if I understood what you meant by "interactive manipulation"). Check the screenshots at www.ggobi.org to get an idea. Hopin' it helps, L.
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rgentleman ★ 5.5k
@rgentleman-7725
Last seen 7.0 years ago
United States
I think that we are likely to leave that to ggobi -- they have done a lot of stuff and the interface to R is pretty reasonable these days. On Tue, Jan 28, 2003 at 05:55:31AM +0100, Laurent Gautier wrote: > On Mon, Jan 27, 2003 at 11:29:39PM -0500, Michael Benjamin wrote: > > Hi, all. > > > > Are there any plans to spice up the principal components analysis tools > > in R? Many commercial packages offer interactive manipulation of 3D > > biplots. We are almost there already, with a fast (if homely- looking) > > biplot in "princomp." Any takers? > > AFAIK, R can interface with ggobi. By linking selections of individuals > in different planes of projection, you should be able to achieve it > (and go beyond "only" 3 dimensions, if I understood what you meant > by "interactive manipulation"). > Check the screenshots at www.ggobi.org to get an idea. > > > Hopin' it helps, > > > L. > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor -- +--------------------------------------------------------------------- ------+ | Robert Gentleman phone : (617) 632-5250 | | Associate Professor fax: (617) 632-2444 | | Department of Biostatistics office: M1B20 | Harvard School of Public Health email: rgentlem@jimmy.dfci.harvard.edu | +--------------------------------------------------------------------- ------+
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