similar to: decision trees using the Hellinger distance rather than

Hello, everybody, I hope somebody could help me with a dist() function. I have a data frame of size 2*4087 (col*row), where col corresponds to the treatment and rows are species, values are Hellinger distances, I should reconstruct a distance matrix with a dist() function. I know that "euclidean" method should be used. When I type: dist(dframe,"euclidean") it gives me a

Hii rstudio members I am learning rstudio, For my manuscript I am trying to plot CCA using species and environmental data. But I am getting error like Error in cca.default(sptrans, envtrans) : all row sums must be >0 in the community data matrix *My code is like * library(vegan) library(ggplot2) library(dplyr) rassspec<-read.csv("C:/Users/hp/Desktop/R_data/rassspec.csv",

I am not familiar with the vegan package, so I am just making a guess here. If 'na.action=na.omit' is part of the call to varpart, try removing it from the function call and moving it above as follows: options(na.action="na.omit") RDA_Ger <- varpart(comm, x1, x2, x3, transfo="hellinger", scale = FALSE) Maybe that will help. Regards, Eric On Sat, Sep 16, 2017 at

The minimum is set at 1200Kbits/second. However, in testing, if I set that for a VNIC, the domU gets no traffic at all (maybe the occassional packet). Is the minimum too low? If I set a maximum of 2000Kbits/second, I get this from nicstat (expecting around 250Kbytes/s total: Time Int rKB/s wKB/s rPk/s wPk/s rAvs wAvs %Util Sat 04:35:38 xvm15_0 146.6 5.32 102.0

The minimum is set at 1200Kbits/second. However, in testing, if I set that for a VNIC, the domU gets no traffic at all (maybe the occassional packet). Is the minimum too low? If I set a maximum of 2000Kbits/second, I get this from nicstat (expecting around 250Kbytes/s total: Time Int rKB/s wKB/s rPk/s wPk/s rAvs wAvs %Util Sat 04:35:38 xvm15_0 146.6 5.32 102.0

I'm trying to perform a RDA analysis in the vegan package using the "varpart" function. I have a matrix of community structure data in different sites (rows), which I want to explain using 3 matrices of environmental data. The 3 matrices are: water quality parameters; local land use variables; total land use variables. In each matrix, the number of the rows is the same (the

Hello, is there a way in which I can use text labels rather than numbers on the x axis ticks? I basically have a vector of (say) 8 points and I want to plot these sequentially. Thus the x axis would have ticks at 1 .. 8. Rather than having the labels 1 .. 8 I would like to have some arbitrary text labels. Ideally I would like the labels to be rotated (say at 45 degrees) so that they don't

Hello, is there a way in which I can use text labels rather than numbers on the x axis ticks? I basically have a vector of (say) 8 points and I want to plot these sequentially. Thus the x axis would have ticks at 1 .. 8. Rather than having the labels 1 .. 8 I would like to have some arbitrary text labels. Ideally I would like the labels to be rotated (say at 45 degrees) so that they don't

Dear all, I'm performing RDA on plant presence/absence data, constrained by geographical locations. I'd like to constrain the RDA by the "extended matrix of geographical coordinates" -ie the matrix of geographical coordinates completed by adding all terms of a cubic trend surface regression- . This is the command I use (package vegan): >rda(Helling ~

Hi, is there any package (or source code snippet) that will evaluate the Frechet distance for curves represented as sets of points? Searching around only threw up references to a Frechet distribution. Thanks, ------------------------------------------------------------------- Rajarshi Guha <rxg218 at psu.edu> <http://jijo.cjb.net> GPG Fingerprint: 0CCA 8EE2 2EEB 25E2 AB04 06F7 1BB9

Dear all, I am having a little trouble deciphering how to change the default x-axis labels in a lattice xyplot (or any type of lattice plot for that matter). I have tried using the "demo("labels") function but the code is truncated at precisely the wrong moment! All I am trying to do is to add superscript to two of the labels for which i tried using the expression function. It

Hi I am looking for an implementation (or alternative to) Mallow's distance or the Earth Mover's distance to compare distributions or unnormalized distributions (signatures). Is there an implementation in R or can somebody recommend an alternative? Thanks Rainer -- Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany) Centre of

I need to use the Bhattacharyya distance metric to determine population separation. Has anyone written a Bhattacharyya distance metric function in R? -- View this message in context: http://old.nabble.com/Bhattacharyya-distance-metric-tp26221259p26221259.html Sent from the R help mailing list archive at Nabble.com.

Hi, this question is probably very obvious but I just cant see where I might be going wrong. I'm using the lm() function to generate a linear model and then make predictions using a different set of data. To generate the model I do (tdata & pdata are matrices of observations and parameters, tdepv, pdepv are response vectors) x <- as.data.frame(tdata) x$tdepv <- tdepv

Hi, I'me trying to write a function that will shuffle a vector. At the moment I'm baically making a vector of randomized indices and then making a new vector from the original one using these random indices. However, is there an alternative (more elegant) method to do this? I tried help.search('shuffle') but it does'nt return anything relevant. Thanks,

Hi all, I started to see fun of gmaps4rails gem from https://github.com/apneadiving/Google-Maps-for-Rails. After everything done. When visited the locahost, i got the following error. undefined local variable or method `acts_as_gmappable'' for #<Class: 0x31a9da8> the error is due to i have line "acts_as_gmappable" in my model. Anybody knows how this is

Hi, is the following possible - in a given session I make a lot of objects and save when exiting. Usually I note down seperately what each object is about. Is it possible to attach data to any object which would essentially be a short note explaining the meaning of it? Thanks, ------------------------------------------------------------------- Rajarshi Guha <rxg218 at psu.edu>

Hi, is there a way to plot distribution curves (say normal or chi sq etc) from within R? For example I looked up the *chisq family of functions but I'm not sure as to how I would use them to generate a plot of the chi sq distribution (for arbitrary d.o.f). Thanks, ------------------------------------------------------------------- Rajarshi Guha <rajarshi at presidency.com>

Hi, I have 3 lists, x, y, z and I'd like to perform a calculation over all the lists simultaneously. If it were a single list I could use lapply, but for more than one list I'm using a for loop. Is there an idiom that would let me use something like lapply, but the function specified to lappy would have access to an element from each list? (In Python, I would have used for a,b,c in

Hi, I have a data.frame that has a categorical variable, for which I would like to look at the distribution of levels of this variable, based on a grouping of two other variables. As an example: x <- data.frame(obs=sample(c('low', 'high'),100, replace=TRUE), grp1=sample(1:10, 100, replace=TRUE), grp2=runif(100)) cut.grp1 <- cut(x$grp1, 3) cut.grp2 <- cut(x$grp2, 3)