Re: [R] matrix help (first occurrence of variable in column)

all the other species have occurred in other samples. Any further help would be much appreciated. On Wed, May 18, 2011 at 9:37 AM, Michael Denslow michael.dens...@gmail.com wrote: Dear R help, Apologies for the less than informative subject line. I will do my best to describe my problem

[R] matrix help (first occurrence of variable in column)

and then sum them up? Thanks in advance, Micheal -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise and Collections sernec.org 36.214177, -81.681480

Re: [R] metaMDS and envfit: Help reading output

, self-contained, reproducible code. -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise and Collections sernec.org 36.214177, -81.681480

Re: [R] rgdal intallation mac ox x

http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Michael Denslow Adjunct Instructor Department of Geography and Planning P.O. Box 32066 Appalachian State University Boone, North Carolina 28608 -- AND -- Communications Manager

Re: [R] Calculation time of isoMDS and the optimal number of dimensions

guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast

Re: [R] NMDS Ordination Graphics Problem

wrong. Also you can post a small example of your data using dput(). The best way that I have found to make ordination plots in vegan is to make them in pieces. Michael -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina

Re: [R] Biplot for PCA using labdsv package

the second example. I am not sure if there is an equivalent function in labdsv so you may wish to use prcomp directly. Either way if you provide the code you used it will make it easier to sort out. Hope this helps, Michael -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department

Re: [R] How to split data for NMDS plots

= as.numeric(dune.env$Use)) Hope this helps, Michael -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise and Collections sernec.org

Re: [R] Retrieving latitude and longitude via Google Maps API

/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise

Re: [R] Three most useful R package

Hi Ralf, 1) What are your 3 most useful R package? Its hard to pick three but since you are making me... vegan rgdal (which will also get you sp, another favorite) rms Michael -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone

Re: [R] how to import map data (maptools?) from a html set of 'coords'

, they're available at the INSEE website I can not easily find an example on this site. Perhaps you could provide a direct link to the file. Lastly, I suspect that the r-sig-geo mailing list would get you some better answers. Michael -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department

Re: [R] Dimensional reduction package

/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. -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North

Re: [R] Problems with savePlot() and postscript under Snow Leopard

http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast

Re: [R] R Output and ArcGIS

/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise

Re: [R] lapply , mapply questions

]] __ 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. -- Michael Denslow Graduate

Re: [R] Help with RGDAL

-guide.html and provide commented, minimal, self-contained, reproducible code. -- Michael Denslow Graduate Student Adjunct Instructor I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional

Re: [R] Help with RGDAL

/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. -- Michael Denslow Graduate Student Adjunct Instructor I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian

Re: [R] Help understanding lrm function of Design library

if at all possible! Good luck, Michael -- Michael Denslow Graduate Student I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise and Collections sernec.org

Re: [R] CRAN + geography = Cranography

Hi Barry, This is great! Thanks for doing this. Maybe I should get a life. Please don't! Michael -- Michael Denslow Graduate Student I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager

Re: [R] package to convert coordiantes to timezone

. -- Michael Denslow Graduate Student I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise and Collections sernec.org __ R

Re: [R] Kruskal's MDS results

1963. http://www.springerlink.com/content/010q1x323915712x/ The you can see MASS::isoMDS or MASS::Shepard to get the exact R calculations. Hope I helped this time, Michael Regards, Dieter Michael Denslow wrote: Hi Dieter, I'll take a shot at this. As I understand it, the stress

Re: [R] Kruskal's MDS results

/ Postal Address: Prinsstraat 13 B-2000 Antwerp Belgium Michael Denslow Graduate Student I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications Manager Southeast Regional Network of Expertise and Collections

[R] help with predict and plotting confidence intervals

States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_2.8.1 Michael Denslow Graduate Student I.W. Carpenter Jr. Herbarium [BOON] Department of Biology Appalachian State University Boone

Re: [R] help with predict and plotting confidence intervals

- log10(wt.data$species) wt.mod - lm(logS~logA, data = wt.data) with(wt.data,plot(logA,logS, ylim = c(2.0,3.5),xlim = c(0,6))) pred.frame - data.frame(logA = seq(0,6, length.out = 24)) pp - predict(wt.mod, int = p, newdata=pred.frame) matlines(pred.frame$logA,pp, lty=c(1,2,2),col=red) Michael

Re: [R] vegan metaMDS

example! plot(c('2','3','4','5'), c(23.26272,16.37268,12.9641,10.50830), xlab = 'dimensions', ylab = 'stress', type = 'b') hope this helps, Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Appalachian State University Boone, North Carolina U.S.A. -- AND -- Communications

Re: [R] autocorrelation

in the analysis of species distributional data: a review. Ecography 30:609-628 Also the book by Bivand et al. 2008. (Applied Spatial Data Analysis with R. from Springer) is very good. Hope this helps, Michael Denslow I.W. Carpenter Jr. Herbarium [BOON] Appalachian State University Boone, North

[R] p-value for Nonmetric Multidimentional Scaling?

Dear R-helpers, I am running metaMDS in the vegan package, which uses isoMDS in MASS, to perform Nonmetric Multidimentional Scaling (NMDS). I have seen some authors report a p-value for the NMDS ordination based on randomization of the dataset. As I understand it this is meant to compare the

[R] by or tapply?

Dear R-helpers, I have a data frame that is similar to the one below. The row names are species and the E1, E2, E3 columns are presence/absence for a given site. I have an additional column 'origin' which has information about the species. E1 E2 E3 origin BASA 0 0 1 N BASO 0 0

[R] Data manipulation question (opposite of table?)

Dear R users, I am a new user (probably obvious by my question) and have really learned a lot from reading this list. Thank you all very much. My main struggles with R are with data manipulation. So here is my question... I have data that is organized as below, this is a short example. value