similar to: function gdist, dist and vegdist in mvpart

Dear All, I would like to ask clarifications on the gower distnce matrix calculated by the function gdistin the library mvpart. Here is a dummy example: > library(mvpart) Loading required package: survival Loading required package: splines mvpart package loaded: extends rpart to include multivariate and distance-based partitioning > x=matrix(1:6, byrow=T, ncol=2) > x [,1]

Dear all, I'm getting an error in one of the stock examples in the 'mvpart' package. I tried: require(mvpart) data(spider) fit3 <- rpart(gdist(spider[,1:12],meth="bray",full=TRUE,sq=TRUE)~water+twigs+reft+herbs+moss+sand,spider,method="dist") #directly from ?rpart summary(fit3) ...which returned the following: Error in apply(formatg(yval, digits - 3), 1,

Hi, I am very new to R and I've been trying to work through the R book to gain a better idea of the code (which is also completely new to me). Initially I imputed my data from a text file and that seemed to work ok, but I'm trying to examine linear relationships between gdist and gair, gdist and gsub, m6dist and m6air, etc. This didn't work and I think it might have something to do

Hello I have 2 rows in a matrix and I want to calculate the Gower Distance between the 2 , how can I do it? I searched and found nothing that can help me, and my program doesn't know the gdist function and I couldn't find it on the R help site. Can anyone help me plz Thank u all [[alternative HTML version deleted]]

Hello!!! I have a folder (C:/R/) with matrix files, named by number, i.e. 0.mat, 1.mat,...,1250.mat. In this case, they are 5x5 simetric matrices. I would like to compute a property for each matrix and put calculated values into a data frame for posterior ploting and printing. Below there is an example for 7 matrices (0.mat..6.mat) #define data frame L <- data.frame(frame=numeric(7),

Hi all, I would like to know a way of calculating the distance between 2 points when I already have the longitude and latitude of the points. For example : Point 1 : 52? 9'54.00"N 4?25'8.40"E Point 2 : 52?27'46.80"N 4?33'18.00"E Distance between point 1 and point in km .... Is there any functions already available for this ? Any help will be much

Hi C?line, Looks like you are looking for a statistical test between two sets of distributions, such as KS test, for example, generate histogram for each row in an identical way and run KS test. But if you are after simple difference you may use compare package ( https://cran.r-project.org/web/packages/compare/index.html). Best, -m PS: Data is already plural :) datas does not exist. On 12

Yes of course, I can share this short view of the datas. Here is the head() of data100, containing all the trees with a final value higher than 100?: CV11 CV12 CV13 CV14 CV15 CV21 CV22 CV23 CV24 CV25 CV26 CV31 CV32 CV33 CV41 CV42 CV43 CV44 CV51 CV52 IN11 IN12 IN13 1291 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1083 0 4 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3919 0 0 0 0 0 0 0 0 0 0 0 2 0

I'm interested in clustering my data using the Gower Similarity Coefficient, and I was wondering if R is capable of using that metric Timothy Rye [[alternative HTML version deleted]]

hello, i'd be happy if someone could provide help with the following problem: i have a dist.matrix that comes from vegdist() function of the vegan package. the used method = "horn" is not accepted as argument in hvcluster(...,dist.method="..."). is there a way to incorporate the method "horn" in hvcluster()? thanks in advance! yours, kay -- View this

Hi I have just (finally) started to poke around in R and wanted to analyse a stream fish dataset with 28 sites and 18 species. When trying to follow the Vegan manual to run nmds from distance measures calculated by the vegdist function it turns out that I have two sites (streams) with the exactly the same four species (I have used pres-abs data in this case). When I try to run isoMDS I get an

---------- Forwarded message ---------- From: <r-help-owner@r-project.org> Date: 2013/2/8 Subject: vegdist Error en double(N * (N - 1)/2) : tama?o del vector especificado es muy grande To: caro.bello58@gmail.com Message rejected by filter rule match ---------- Mensaje reenviado ---------- From: caro bello <caro.bello58@gmail.com> To: r-help@r-project.org Cc: Date: Fri, 8 Feb 2013

Do you have a simplified example with a code? It is not clear to me what do you mean by tree but if you refer to tree data structure, maybe you could change the data structure to tree (https://cran.r-project.org/web/packages/data.tree/vignettes/data.tree.html) and try to write comparison of two tree objects. It might be easier that data.frame alone. On 12 September 2017 at 12:27, C?line L?scher

Hi everyone, I need your help to solve a problem with occurrence and two dataframes. I have an excel table of 15200 lines. Each line correspond to a tree analyzed for its structures. I have all the structures in columns (48 structures). The occurrence of these structures has been counted on every tree. For example, the tree 12607 has 3 structures CV11, 1 structure IN12 and none (0) of the rest of

This message is in MIME format. The first part should be readable text, while the remaining parts are likely unreadable without MIME-aware tools. Send mail to mime@docserver.cac.washington.edu for more info. ---559023410-1804928587-922106403=:691 Content-Type: TEXT/PLAIN; charset=US-ASCII A couple of weeks ago I asked if anyone had generalised outer to include bound extents -- effectively

Hi all, I am running an -MNP- multinomial probit model package using R. It gives me the following objection instead of giving me the results: Erreur : impossible d'allouer un vecteur de taille 137.9 Mo (in english: cannot allocate a 137.9 Mb vector memory).  I have already increased the memory size upto 2047Mb. This problem has been discussed in 2008 (archives) but no profitable answers were

Hi, I misunderstand the definition of Canberra distance in R. On Internet and in function description pages of dist() from stats and Dist() from amap, Canberra distance between vectors x and y, d(x,y), is : d(x,y) = sum(abs(x-y)/(x+y)) But in use, through simple examples, we find that the formula is : d(x,y) = (NZ + 1)/NZ * sum(abs(x-y)/(x+y)) with NZ = nb of pairs of coordinates that are