similar to: help about the dist() error message

Vince Carey found this (thank you!). Since the fix to the problem is not entirely obvious, I post this to R-devel as RFC: help(dist) says: >> Missing values are allowed, and are excluded from all computations >> involving the rows within which they occur. If some columns are >> excluded in calculating a Euclidean, Manhattan or Canberra >> distance, the sum is

Hi Ryszard! There is a dist function in R. It's in the mva package. You can set the kind of distance that you want. Thanks, Erin mailto:hodgess at gator.uhd.edu

Hi all, I'd like to add the Bhattacharyya method to the dist function. What is the best way to do this? I'm using R 1.9.0 and I was looking for the code that defines the already existing distances, but I didn't manage. As far as I understand, dist is defined in mva that is part of the stats package now, but where is the code? Thank you very much, Giampiero

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. ---559023410-162216788-916833047=:29339 Content-Type: TEXT/PLAIN; charset=US-ASCII On my R installation (0.62.4) there is no dist() function, so I attach one possibility. It provides

hi, i have just begun using R, so please bear with me. i am trying to use cmdscale and display the result. i read the data using read.table(), calculate the proximity matrix using dist() and the display the result using the cmdscale(). this is very fine. in addition, i want the display to distinguish between two classes of records in my data. i have my data records marked as "1" or

Hello, I am working with a matrix of multilocus genotypes for ~180 individual snail samples, with substantial missing data. I am trying to calculate the pairwise genetic distance between individuals using the stats package 'dist' function, using euclidean distance. I took a subset of this dataset (3 samples x 3 loci) to test how euclidean distance is calculated: 3x3 subset used

So I have a text file that looks like this: "Label" "X" "Y" "Slice" 1 "Field_1_R3D_D3D_PRJ_w617.tif" 348 506 1 2 "Field_1_R3D_D3D_PRJ_w617.tif" 359 505 1 3 "Field_1_R3D_D3D_PRJ_w617.tif" 356 524 1 4 "Field_1_R3D_D3D_PRJ_w617.tif" 2 0 1 5 "Field_1_R3D_D3D_PRJ_w617.tif" 412 872 1 6

Using Rseptbeta for Windows 95 I encountered this problem: > library(mva) > data(quakes) > dist(quakes) Error: memory exhausted I'm using a pentium 133 with 32 MB ram memory! What I must to do? Thanks and excuse me for my english! Andrea Rossetti, rossetti at stat.unipg.it _______________________________________________________ Statistica & Informatica per la Gestione delle

> BDR> You will need to call it something else: dist is a clone of an S > BDR> function, and dist(X, "manhattan") is well-established usage. > > one could still imagine an extra Y argument such that > dist(X, Y=myY, method="euclidean") > and dist(X, "euclidean", Y=myY) > would work > one could even make it such that > both

Hi Everyone, I am a graduate student who will be using R to do my analysis. I need to do a spatial analysis, and the first step is to calculate the geographic distance between my study sites. I am hoping to use earth.dist because it allows for multiple pairwise distances to be calculated at one time. I have done a sample calculation, and I seem to have a problem between the steps of using

Dear R developers, I am visualising high dimensional genomic data and for this purpose I need to compute pairwise distances between many points in a high-dimensional space (say I have a matrix of 5,000 rows and 20,000 columns, so the result is a 5,000x5,000 matrix or it's upper diagonal).Computing such thing in R takes many hours (I am doing this on a Linux server with more than 100 GB of RAM,

If there are many character variables,and I want to get the mosaic plot of every pair of each variable,how to do then? If the variables are numeric, I can use pairs to get paired scatter plot. But as to the character variables, how to get the "paired mosaic plot"? Many thanks. -- QQ: 1733768559 At 2015-02-07 17:04:26,"Jim Lemon" <drjimlemon at gmail.com>

I wanted to use the dist() function from the mva library in my own library, so I put require(mva) in my files. When my library loads, a message about "Autoloading ... mva" appears. But when I call dist() now within my functions the message Error in .C("dist", as.double(x), nrow(x), ncol(x), double(len), as.integer(method)) : C/Fortran function not in load table appears.

I am using rw0613b with djtools on Win95. No problem with makefiles building fortran and C dll's, plus can build R.exe with the supplied libraries (including mva). Why then do I get the following error when I try to building an existing library separately, eg... (/R-0.61.3/src/gnuwin32)$ make -f MakePkg -C ../library/mva PKG=mva make.exe: Entering directory `c:/R-0.61.3/src/library/mva'

more info just 1 server webserver + appserver + dbserver On 9/14/07, Yan Meng <dreamwords at gmail.com> wrote: > > Hi, Guys > > Our team is running a web2.0 finance site in China > > http://www.caibangzi.com/ > > We use APACHE + mod_proxy_balancer + mongrel to deploy our application, it > workd super in the past few monthes. > > However, just from last

Dear R-devel, googling for the single letter R yields R-home page as the firt hit, which is extremly nice. By clicking on the figure you get the code of the "Winner of the R Homepage graphics competition 2004." By copy/pasting in your R console it doesn't work because it is impossible to install the mva package. This is my point. As documented in ONEWS the reason is simple:

Hi Stefan, Thank you very much for pointing me to the wordspace package. It does the job a bit faster than my C code but is 100 times more convenient. By the way, since the tcrossprod function in the Matrix package is so fast, the Euclidean distance can be computed very fast: euc_dist <- function(m) {mtm <- Matrix::tcrossprod(m); sq <- rowSums(m*m);? sqrt(outer(sq,sq,"+") -

I can't understand that people still send things like this to R-core... ------- start of forwarded message ------- From: Tineke Casneuf <ticas at psb.ugent.be> Sender: r-core-bounces at stat.math.ethz.ch To: R-core at r-project.org Subject: help(Memory) Date: Wed, 04 Feb 2004 13:39:32 +0100 Dear, I am trying to find a appropriate package to analyse gene expression data from DNA

Canberra distance is defined in function `dist' (standard library `mva') as sum(|x_i - y_i| / |x_i + y_i|) Obviously this is undefined for cases where both x_i and y_i are zeros. Since double zeros are common in many data sets, this is a nuisance. In our field (from which the distance is coming), it is customary to remove double zeros: contribution to distance is zero when both x_i

Canberra distance is defined in function `dist' (standard library `mva') as sum(|x_i - y_i| / |x_i + y_i|) Obviously this is undefined for cases where both x_i and y_i are zeros. Since double zeros are common in many data sets, this is a nuisance. In our field (from which the distance is coming), it is customary to remove double zeros: contribution to distance is zero when both x_i