search for: vare

If you submit these lines, you end up with variable "vare.dis". I want to export vare.dis to csv. Stuck I am. library(vegan,logical.return = TRUE) #return=true verifies package is available library(MASS,logical.return=TRUE) #return=true verifies package is available data(varespec) #varespec is an example data file in the vegan package var...

Hello This is a simple question but I couldn't google an answer. In the procrustes function of the vegan package, one uses plot(procrustes_object, kind=2) to obtain a plot of the residual differences. For instance: data(varespec) vare.dist <- vegdist(wisconsin(varespec)) library(MASS) mds.null <- isoMDS(vare.dist, tol=1e-7) mds.alt <- isoMDS(vare.dist, initMDS(vare.dist), maxit=200, tol=1e-7) vare.proc <- procrustes(mds.alt, mds.null) plot(vare.proc, kind=2) In the resulting plot 3 horizontal lines (1...

Dear all, I realised a correspondence analysis with function cca() of vegan library. Just like in Okansen (2010) in the example of R help: library(vegan) data(varespec) data(varechem) vare.cca<-cca(varespec~ Al + P + K, varechem) With plot.cca() function I represented the species matrix in the next way: plot(vare.cca,display="species") Being similar to: plot((c(-2,2)),(c(-2,2)), type="n", xlab="AXIS 1", ylab="AXIS 2&quo...

...anonical correspondence analysis (cca) with the example data of vegan, but I'm not able to obtain a table like scores() for the constraining variables. I can see them in the summary() mode, but it would be great to have in a separate table. Any suggestion?, thanx Gianandrea require(vegan) data(varespec) data(varechem) vare.cca<-cca(varespec,varechem) scores(vare.cca) summary(vare.cca) -- View this message in context: http://www.nabble.com/cca-constraining-variables-table-tp19688215p19688215.html Sent from the R help mailing list archive at Nabble.com.

....arrows to work as I wish when conditioning. The attached file contains the function definitions for the xyplot method and the custom panel and prepanel functions I am using. This example, using data and functions from the vegan package illustrates the problem. require(vegan) require(lattice) data(varespec) vare.dist <- vegdist(wisconsin(varespec)) library(MASS) ## isoMDS mds.null <- isoMDS(vare.dist, tol=1e-7) mds.alt <- isoMDS(vare.dist, initMDS(vare.dist), maxit=200, tol=1e-7) vare.proc <- procrustes(mds.alt, mds.null) vare.proc groups <- factor(c(rep(1,16), rep(2,8)), labels =...

Let's say I have a program that returns variables whose names may be any string within the vector NAMES=c("varA","varB","varC","varD","varE","varF"..."varZ"), but I do not ever know which ones have actually been created. So in one example output, "varA", "varC", and "varD" could exist, but in another example output "varA", "varD", "varE",and "v...

Hi, I have a couple questions about fitting environmental (land use factors, plant species presence-absence, and soil variables) constraints to my CCA biplot. 1. After successfully plotting species and site scores in my CCA, I have been trying to insert the biplot arrows of the environmental constraints in my data set using the text() function. When I do that, the plot changes completely. Is there

Hello! I am new to R (before used python exclusively and would actually call the R solution for this issue inside a python notebook, hope that doesn?t disqualify me right of the batch). Right now I am looking for a piece of software to fit a 1D data sample to a mixture of t-distributions. I searched quite a while already and it seems to be that this is a somehwat obscure endeavor as most

..., > Bert > > > Bert Gunter > > "The trouble with having an open mind is that people keep coming along > and sticking things into it." > -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) > > > On Thu, Jun 29, 2017 at 5:41 AM, vare vare via R-help > <r-help at r-project.org> wrote: >> Hello! >> >> I am new to R (before used python exclusively and would actually call the R solution for this issue inside a python notebook, hope that doesn?t disqualify me right of the batch). >> >> Right...

Dear r-helpers, I just read in an article by Virtanen et al. (2006) where vegetation-environment relationships are studied by fitting smoothed surfaces on an NMDS ordination using GAMs (Wood 2000). The authors describe, that they used R? as goodness-of-fit statistic, which they compare to the R? of fitted vectors. Calculations were carried out using the package vegan (Oksanen). I know that I can

Dear R-list, I have a data set (in the following example called "a") which have: one "subject indicator" variable (called "id") three dependent variables (varD, varE, var F) three independent variables (varA, varB, varC) I want to fit 9 lme models, one per posible combination (DA, DB, DC, EA, EB, EC, FA, FB, FC). In stead of writting the 9 lme models, I want to do it sistematically (the example is a simplification of what I really have). Here you have the com...

...<- 5.3 + 0.6*(6.3 - 5.8) s <- sqrt(0.2^2*(1-0.6^2)) q <- seq(5.12,6.08,0.16) print(rbind(q,pnorm(mean=m,sd=sd=s,q=q))) output q 5.1200 5.280 5.44 5.6 5.76 5.92 6.1 0.0013 0.023 0.16 0.5 0.84 0.98 1 I have been asked to interpret E[X2|X1 = 6.3] and varE[X2|X1 = 6.3] I take it that s<- = 0.16 is the standard variation So I am assuming that varE[X2|X1 = 6.3] = 0.16^2 = .0256 m <- 5.3 + 0.6*(6.3 - 5.8) = 5.6 this the Expected value of E[X+Y] I see from the output that this would be correct because the probability of 5.6 = 0.5 to inte...

...and the files and directories that I moved are duplicaded on the backup. Is there anyone who can help me out. Here is the comand I use: rsync -av --exclude "/**/movies/" --exclude "/mnt/" --delete / /mnt/backup/backup /Pedro -- L?s om f?rf?ljelsen av Falun Gong- ut?vare i Kina: http://www.falungonginfo.net Read about the persecution of Falun Gong- practitioners in China: http://www.faluninfo.net -- To unsubscribe or change options: http://lists.samba.org/mailman/listinfo/rsync Before posting, read: http://www.catb.org/~esr/faqs/smart-questions.html

Would package "teigen" help? Ranjan On Thu, 29 Jun 2017 14:41:34 +0200 vare vare via R-help <r-help at r-project.org> wrote: > Hello! > > I am new to R (before used python exclusively and would actually call the R solution for this issue inside a python notebook, hope that doesn?t disqualify me right of the batch). > > Right now I am looking for a...

...ree to ignore, of course, and no need to reply. Cheers, Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Thu, Jun 29, 2017 at 5:41 AM, vare vare via R-help <r-help at r-project.org> wrote: > Hello! > > I am new to R (before used python exclusively and would actually call the R solution for this issue inside a python notebook, hope that doesn?t disqualify me right of the batch). > > Right now I am looking for a pie...

...ith ade4 OR a Monte Carlo with vegan. If anyone has experience with this I would be truly grateful for your help! I am fairly new to R, and I have quickly found myself in a place where "Google-ing" has no longer proven useful. Below are my scripts and error messages. Using Vegan: > vare.cca <- cca(InvertR.csv ~ Space1 + Space2... + Condition(Env1) + > Condition(Env2)..., HabitatSpaceR.csv) > randtest(vare.cca, nrepet = 1000) Error in randtest.cca(vare.cca, nrepet = 1000) : Object of class dudi expected Using ade4: > vare.cca <- cca(InvertR.csv ~ Space1 + Space2....

Hello, I am interested in using the capscale function of vegan package of R. I already have a dissimilarity matrix and I am intended to use it as 'distance' argument. But then, I don't know what kind of data must be in 'comm' argument. I don't understand what type of data must be referred as 'species scores' and 'community data frame' since my data refer to

...dated?) with a running example for this package: https://stackoverflow.com/questions/44825529/package-to-fit-mixtures-of-student-t-distributions/44827220#44827220 <https://stackoverflow.com/questions/44825529/package-to-fit-mixtures-of-student-t-distributions/44827220#44827220> Kind regards Vare > Would package "teigen" help? > > Ranjan > > > On Thu, Jun 29, 2017 at 2:41 PM, vare vare via R-help <r-help at r-project.org <mailto:r-help at r-project.org>> wrote: > Hello! > > I am new to R (before used python exclusively and would actual...

...even why it occurs now: > oberlm <- lm(DYI ~ BIP + BrInv_bw + EOil, data=HU_I) > coeftest(oberlm, NeweyWest(oberlm, lag=2)) Fehler in if ((dimension < 1) | (dimension > n)) stop("wrong embedding dimension") : Argument hat Länge 0 Zusätzlich: Warning message: In log(det(varE[[m - order.min + 1]])) : NaNs wurden erzeugt Can anyone understand there the problem is? Best, Marina [[alternative HTML version deleted]]

I have drawed a picture with persp, it's 3d map with different color, indicate different altitude. In gnuplot, the corresponding command 'splot' will generate a picture beside to indicate the relationship between color and altitude. But in R, how to draw it? I have read the manual of legend, but they are all about how to draw a legend with colored text, not a continuous varing color