similar to: Very Slow Gower Similarity Function

Hello, I have a big matrix of size (20,5) -bmat . I have to loop though the rows in the matrix and create DIFFERENT matrices each time I go through the loop. counts=c(4,6,10); p=1; for (i in 1:length(counts)) { smat=bmat[p:p+i-1,]; p=p+i; } The problem is smat overwrites itself each time inside the loop. I would like to have smat1, smat2, smat3 instead of a single vector smat.

I'd appreciate it if you'd keep on list for the archives. That said, I think this function does what you were hoping for. Michael powerset <- function(n, items = NULL){ if(!is.null(items)) { if(n != length(items)) warning("Resetting n in preference to length(items)") n = length(items) } smat <- do.call(expand.grid, rep(list(c(0,1)), n))

Consider the R code: mat <- matrix(seq(1,20),4,5) is.matrix(mat) # gives TRUE is.vector(mat) # gives FALSE On the other hand, if mat is passed through the .Call interface the corresponding SEXP (call it smat) satisfies isMatrix(smat) // TRUE isVector(smat) // TRUE Consequently, you cannot distinguish matrices from vectors. Looking at the dim attribute of a vector doesn't help because

Hello, I just tried configuring R to use architecture-dependent subdirs $ r_arch=x86_64 ./configure --prefix=/u/smat/konis/testdir on a Debain Squeeze box $ uname -a Linux smapc007 2.6.32-5-686 #1 SMP Sat Sep 18 02:14:45 UTC 2010 i686 GNU/Linux After building and installing, the Rconfig.h ended up in .../lib/R/include/x86_64 but R.h still includes it as #include <Rconfig.h>

Dear R experts. I might be missing something obvious. I have been trying to fix this problem for some weeks. Please help. #data ped <- c(rep(1, 4), rep(2, 3), rep(3, 3)) y <- rnorm(10, 8, 2) # variable set 1 M1a <- sample (c(1, 2,3), 10, replace= T) M1b <- sample (c(1, 2,3), 10, replace= T) M1aP1 <- sample (c(1, 2,3), 10, replace= T) M1bP2 <- sample (c(1, 2,3), 10, replace= T)

Hi All I have a symmetric matrix of genes ( 100x100 matrix). I also have a matrix (100x2) of two columns where column 1 has the gene names and column 2 has the cluster it belongs to (they are sorted and grouped based on the cluster no). I would like to order the rows and columns of the 100x 100 matrix such that the first n genes correspond to cluster 1 and next n genes correspond to cluster 2

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]]

I have two matrix s1 and s2, each of them is 1000*1. and I have two equations: digamma(p)-digamma(p+q)=s1, digamma(q)-digamma(p+q)=s2, and I want to sovle these two equations to get the value of x and y, which are also two 1000*1 matrices. I write a program like this: f <- function(x) { p<- x[1]; q <- x[2]; ((digamma(p)-digamma(p+q)-s1[2,]) )^2 +((digamma(q)-digamma(p+q)-s2[2,]) )^2

Hi R users I am trying to create a spatial join between two datasets. The first data set is large and contains descriptive data including x and y co-ordinates. The second dataset is small and has been selected spatially. The only data contained within the second dataset is the x and y coordinates only i.e. no descriptive data. The aim of a join made between the two datasets is to select

Dear list readers, I want to: 1. Get a table of basic descriptive statistics for my variables with the variable names one below the other like SPSS descriptive statistics: Varname N Min Max Mean SD xxxx x x x x x xxx x x x x x .... 2. Delete some variables from a data frame or exclude variables from beeing analyzed. 3. Create a text file / redirect the terminal output to a

Hi, I'm having some trouble with a bit of combined C & R code. I'm trying to write a C function to handle the for loops in a function I'm working on to calculate a similarity matrix. Jari Oksanen has kindly added the necessary changes to the vegan package so that I can use the vegdist function, so this isn't absolutely necessary. However, I'm stubborn and want to know

Hi, I'm having some trouble with a bit of combined C & R code. I'm trying to write a C function to handle the for loops in a function I'm working on to calculate a similarity matrix. Jari Oksanen has kindly added the necessary changes to the vegan package so that I can use the vegdist function, so this isn't absolutely necessary. However, I'm stubborn and want to know

Hey guys, I've got two Linux user accounts: foo and bar. AFAIK, both have identical .wine directories, that both point to the same fake dos drive. User 'foo' is able to run Quicken in wine, but user 'bar' is not. (I don't recall the exact error, but it was pretty non-descript.) Does Wine support this kind of thing? My ultimate goal is that, regardless of whether user

In mongoid, a ORM mapped database object is like below. The part "type: String" seems to me to not fit into any standard ruby syntax and I was curious how does mongoid implement that ? class Step include Mongoid::Document field :Label, type: String field :Descript, type: String field :ErrorText, type: String embedded_in :step_data end -- You received this message

Hi the list, I need to compute Gower distance between a specific individual and all the other individual. The function DAISY from package cluster compute all the pairwise dissimilarities of a population. If the population is N individuals, that is arround N^2 distances to compute. I need to compute the distance between a specific individual and all the other individual, that is only N

Hello, I am running DAISY in R and using the GOWER metric since I am working with mixed variables. I am wondering if there is a way to weight the different variables. I see that there is a weight value for Gower but do not know if this is how to weight the diffrent variables with different weighting values. Please advise if there is a way to weight the different variables. Thank you. -- View

I am using DIANA/DAISY/GOWER. Some of my categorical data include NULLS. When assessing disimilarity, these NULLS are considered similar. I do not want these NULLS to contribute towards similarity. Instead is there a way for these NULLS to each be considered different so as to contribute to disimiliarity and not simillarity? Also, I do not want to change these NULLS in the data as I need them for

Alguém sabe onde encontro os comandos para utilizar em daisy() no pacote cluster o método de Gower para dados moleculares codominantes, quantitativos e multicategóricos "conjuntamente"? Agradeço. OBS.: confirmar por favor o recebimento da mensagem. #################################### Adésio Ferreira Universidade Federal do Espírito Santo Centro de Ciências Agrárias Departamento

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]

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]]