similar to: Self organising map - label the best matching unit

Hello R users, I'm using SOM() to cluster a gene expression data set the syntax i used was dataGrid <- c(somgrid(xdim = 3, ydim = 3, topo = c("rectangular","hexagonal"))) dataClusters <- SOM(dataMatrix, grid = dataGrid) plot(dataClusters) it seems that this works just fine but the thing i can't figure out is how to determine where each data point has been

All, The kohonen predict function is returning NA for SOM predictions regardless of data used... even the package example for a SOM using wine data is returning NA's Does anyone have a working example SOM. Also, what is the purpose of trainY, what would be the dependent data for an unsupervised SOM? As may be apparent to you by my questions, I am very new to kohonen maps and am very grateful

Hi All, I am still learning R, but making, IMO, great strides. I learned about Kohonen/Self-Organizing Maps in class and I would like to try to replicate some of the things we have seen in class. Below is my code. I am trying to create a u-matrix. In the documentation on page 9 it appears the type of plot, dist.neighbours should do the trick, however, I am getting an error: (Error in

Hi everybody! I try to implements Self-Organizing Maps with R and the Kohonen package. I have made an algorithm that try differents width and height. For each step, Silhouette index, Davies-Bouldin index and Dunn index are computed. However, there is always after severals minutes a *Runtime error* appears on the window: Microsoft visual c++ runtime library "this application has requested

I have a data set with 10 variables, and about 8000 instances (or objects/rows/samples). In addition I have one more ('class') variable that I have about 10 instances for, but for which I wish to impute values for. I am a little confused how to go about doing this, mostly as I'm not well-versed in it. Do I train the SOM with a data object that contains just the first 10 variables

HI, Dear R community, I am using the following codes to do the som. I tried to label the notes by the majority vote. either through mapping or prediction. I attached my output, the left one dont have any labels in the note, the right one has more than one label in each note. I need to have only one label for each note either by majority vote or prediction. Can anyone give some suggestions or

Hi All, I am experimenting with using binary data (1, 0) in the kohonen package. I would like either 1 or 0 to be mapped in SOM, but the package gives me 1 or 0 (as expected), but something in between. I am not scaling the binary data, but still there are in-between values. Can anybody suggest a way to keep the data binary, even in the SOM plot? Thanks a lot. George

clusterfly http://had.co.nz/clusterfly/ Typically, there is somewhat of a divide between statistics and visualisation software. Statistics software, particularly R, provides implementation of cutting edge research methods, but limited graphics. Visualisation software will provide sophisticated visual interfaces, but few statistical algorithms. The clusterfly package presents some early

clusterfly http://had.co.nz/clusterfly/ Typically, there is somewhat of a divide between statistics and visualisation software. Statistics software, particularly R, provides implementation of cutting edge research methods, but limited graphics. Visualisation software will provide sophisticated visual interfaces, but few statistical algorithms. The clusterfly package presents some early

Hi, I'm trying to utilize the kohonen package to build SOM's. However, trying this on my data I get the error: "Argument data should be numeric" when running the som(data.train, grid = somgrid(6, 6, "hexagonal")) function. As you see, there is a problem with the data type of data.train which is a list. When I try to convert it to "numeric" I get the error:

Does anyone know of any SOM library for R? or any stand alone freeware? A search from google returns SOM_PAK 3.1 developed at Helsinki University of Technology. Is there newer version? Jun -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or

hi all, i would like to apply the kohonen 's algorithm (SOM). Somebody knows if there is an available script ? thanks -- ------- Olivier MARTIN -------- _______________________________ _______________________________ CEA 17, rues des martyrs LETI/DSYS/SCSI Bur 225 olivier.martin at cea.fr 04 76 88 47 61 (bur.) 04 76 88 57 87 (fax.) ---------------------- 06 08 67 93 42 (pers.)

I would really like some or any advice on how I can improve (or fix??) the following analysis. I hope I have provided a completely runnable code - it doesn't produce any errors for me. The resulting plot at the end shows a pretty poor correlation (just speaking visually here) to the test set. How can I improve the performance of the mapping and prediction? Here are some of the data

Hello everyone, I'm new to this list, so let me introduce myself: my name is Jonck van der Kogel and I am a graduate student at the Erasmus University of Rotterdam. I am currently working on my thesis which is on the use of artificial intelligence for large data-sets. To do an analysis of a certain data-set I want to use Kohonen's SOM algorithm. However, as I understand it, the SOM

Hi All, I'm looking for some reference paper about SOM (self organizing map) algorithm. I tried the paper which is mentioned in the help page of function "som (package:som)": http://www.cis.hut.fi/research/papers/som_tr96.ps.Z But I can't open it for some reason. Could you please help me with it ? Thanks a lot! [[alternative HTML version deleted]]

Hi. Three years ago, I've read the question of availability of SOM library for R using Kohonen's SOM_PAK in this mailing-list. This answer was no availability. And no package dealing with SOM in CRAN. Is this situation same? Could you tell me availability this library? Best Regards.

Dear list, I read the SOM package manual but I don't understand how to perform (for example) 1) the SOM analysis on Iris data 2) with a visualization similar to that of figure 7 in http://www.cis.hut.fi/projects/somtoolbox/package/papers/techrep.pdf Any suggestion? Thanks in advance, Gianandrea -- View this message in context:

Is there an implementation of the SOM ('Self Organizing Map') procedure in R ? I am aware of the implementations of Sammon mapping, multidimensional scaling and, somewhat peripherally, principal curves and projection pursuit .. but not SOM per se as far as I can see. Am I missing something? --------------------- for anyone interesed in SOM I found Samuel Kaski's thesis

Hello everyone,  I'm working in a project to create an special analysis about visualization in some animals and its behaviour, through checking eye movement. The point is this is very important to get data from the image as a resume of what this animal sees. I think an RGB histogram like photoshop does, but I need to get the data from this histogram analysis and I was wondering about using R

I''m toying with the idea of organising a Ruby User Group for Singapore, hence, singapore.rb. I just want to find out who would be interested in participating in this. Also, I would really appreciate pointers on organising something like this. -- Practical_Guile::Clever_Tagline::Pending http://practicalguile.com -------------- next part -------------- An HTML attachment was scrubbed...