search for: jombart

I get tables with millions of rows. For plotting to a screen-size jpg, obviously just about 1000 points are enough. Instead of feeding plot() the original millions of rows, I'd rather shrink the original dataframe, using some kind of the following interpolation: -- split dataframe into chunks of N rows each, e.g. 1000 rows each -- compute average for each column -- issue one new row

...yone know if Monmonier algorithm is available in R? I've checked several spatial libraries, but I didn't find anything related to it. However, there is a huge documentation and I may have missed it. Before coding it, I'd like to be sure it doesn't already exist. Cheers, Thibaut Jombart. -- ###################################### Thibaut JOMBART CNRS UMR 5558 - Laboratoire de Biom?trie et Biologie Evolutive Universite Lyon 1 43 bd du 11 novembre 1918 69622 Villeurbanne Cedex T?l. : 04.72.43.29.35 Fax : 04.72.43.13.88 jombart at biomserv.univ-lyon1.fr

...driver is only a slight modification of RweaveLatex, and can generate ps, pdf or png figures; it was tested on Ubuntu64, Debian, several Windows systems and macOS X partforms with no detected problem. Does someone find this useful, and/or were there better solutions I missed? Regards, Thibaut Jombart . -- ###################################### Thibaut JOMBART CNRS UMR 5558 - Laboratoire de Biom?trie et Biologie Evolutive Universite Lyon 1 43 bd du 11 novembre 1918 69622 Villeurbanne Cedex T?l. : 04.72.43.29.35 Fax : 04.72.43.13.88 jombart at biomserv.univ-lyon1.fr <https://stat.ethz.ch/mai...

...s post: http://stackoverflow.com/questions/8637993/better-explanation-of-when-to-use-imports-depends clarified things a bit, but I still don't understand the warning above. Any clarification will be much appreciated. All the best Thibaut -- ###################################### Dr Thibaut JOMBART MRC Centre for Outbreak Analysis and Modelling Department of Infectious Disease Epidemiology Imperial College - School of Public Health St Mary?s Campus Norfolk Place London W2 1PG United Kingdom Tel. : 0044 (0)20 7594 3658 t.jombart at imperial.ac.uk http://sites.google.com/site/thibautjombart/ ht...

Hello, Here is a late answer, but an answer nonetheless to the question I asked almost one year ago on this list: > On Wed, 29 Mar 2006, Thibaut Jombart wrote: >> Hello list, <http://tolstoy.newcastle.edu.au/R/help/06/03/24318.html#24322qlink1> />> / />> does anyone know if Monmonier algorithm is available in R? I've checked / />> several spatial libraries, but I didn't find anything related to it. / />&...

Dear all, (Mac OS X 10.4.11, R 2.6.0) I have a quantitative dataset with a lot of Na?s in it. So many, that it is not possible to delete all rows with NA?s and also not possible, to delete all variables with NA?s. Is there a function for a principal component analysis, that can deal with so many NA?s. Thanks in advance Birgit Birgit Lemcke Institut f?r Systematische Botanik

...)' I couldn't go further because of the .Internal. I tried to googlise this, but I found no such problem reported recently. Can anyone tell if this is actually a bug? (In case not, please tell me where I got wrong). Regards, Thibaut. -- ###################################### Thibaut JOMBART CNRS UMR 5558 - Laboratoire de Biom?trie et Biologie Evolutive Universite Lyon 1 43 bd du 11 novembre 1918 69622 Villeurbanne Cedex T?l. : 04.72.43.29.35 Fax : 04.72.43.13.88 jombart at biomserv.univ-lyon1.fr http://biomserv.univ-lyon1.fr/sitelabo/pageperso.php?id_personne=178

Full_Name: Jori M?ntysalo Version: 2.3.1 OS: Linux, GNU/Debian stable Submission from: (NULL) (81.197.171.182) I said ./configure --with-readline=no --with-x=no make make install and everything works except that /usr/local/lib/R/etc/ldpaths was not readable as normal user.

...at would be obtained under 'verbatim' environment : R code lines are cut as they don't fit in the page width. I tried to find answers in the latest Sweaved User Manual, unsuccessfully. I'm a recent latex user and I doubt I can quickly find a solution by myself. Thanks, Thibaut Jombart

Hi everyone, I have a matrix that contains 1000 replicates of a sample of a list of values. I want to group each row (row=replicate) into my defined bin ranges and then calculate the mean and stdev for each of the bin ranges (so I will have 1000 rows but ncol=number of bin ranges). I don't know how to group rows in a matrix matrix according to another vector (which is what I think I need to

Dear R user, I am using Sweave to write my reports with R code. Unlucly my code take a lot of time to run, and I don't want to run it multiple time, if possible, as I am still developping the tools. It seems that a sweave run does not save the enviroment at the end of the process, is there a way to avoid to lunch multiple time the same commands? maybe it could be possible to store chunck of

Hi, I am a new student to R and I was hoping someone could help me with the error message I keep getting when I try to use the nb2listw() function. I have 45 sites and I want to get an autocorrelation value for sites within 1000m of each other. coords<-cbind(EAST,NORTH) coords<-as.matrix(coords) nb1000<-dnearneigh(coords,0,1000,longlat=TRUE) then when I try to run the

Hi the list, I am defining a new class MyClass. Shortly, I will submit a package with it. Before, I would like to know if there is a kind of "non official list" of what method a new S4 object have. More precisely, personnaly, I use 'print', 'summary' and 'plot' a lot. So for my new class, I define these 3 methods. Is there some other method that a R user can

Hi Everyone, I am doing a project based on "Spatially Lagged Predictor Variable Models", I would like to know which package in R would execute this model. Also, I am new to this field of spatial statistics. Any suggestions for a good book on spatial regression analysis would be appreciated. Thanks Again. Cheers Arun -- View this message in context:

...e driver, which is only a slight modification of RweaveLatex, can generate ps, pdf or png figures; it was tested on Ubuntu64, Debian, several Windows systems and macOS X partforms with no detected problem. Does someone find this useful, or were there better solutions I missed? Regards, Thibaut Jombart . -- ###################################### Thibaut JOMBART CNRS UMR 5558 - Laboratoire de Biom?trie et Biologie Evolutive Universite Lyon 1 43 bd du 11 novembre 1918 69622 Villeurbanne Cedex T?l. : 04.72.43.29.35 Fax : 04.72.43.13.88 jombart at biomserv.univ-lyon1.fr

Dear R community, I'm working with PCA and CCA methods, and I have a theoretical question. Why is it necesary to have more temporal values than variables when the CCA O PCA are going to be used? Could you advise to me some any paper about it? Thanks in advance, [[alternative HTML version deleted]]

...source file is indeed sourced when loading the package: it is. The method "[" is not defined by any other package for 'genind' objects. I would be pleased to get any piece of insight, advice, or explanation for this issue. Thanks in advance for your time. Best regards, Thibaut Jombart. -- ###################################### Dr Thibaut JOMBART MRC Centre for Outbreak Analysis and Modelling Department of Infectious Disease Epidemiology Imperial College - Faculty of Medicine St Mary?s Campus Norfolk Place London W2 1PG United Kingdom Tel. : 0044 (0)20 7594 3658 t.jombart at i...

Dear all, I'm using the package adehabitat in R to import several .asc files (=matrix), and also create a kasc object (=dataframe) with all of them. The main idea is to use this kasc object to map the predicted values of climate-matching model for an overall area. However, I don't know how to proceed: Do I have to project the model (already stored in R) onto the kasc object directly, or

hi, if I have 20 x 3 data.frame, how to split it into 10 x 6 (moving the lower part of 10x3 to column) or 5 x 12 thanks -- Weiwei Shi, Ph.D Research Scientist GeneGO, Inc. "Did you always know?" "No, I did not. But I believed..." ---Matrix III

Hi, I am trying to calculate Moran's I test for the residuals for a regression equation, but I have trouble converting my coordinates into nb format. I have used the dnearneigh() funtion now with an arbitrarily high upper distance to make it include all plots. However, when I do the lm.morantest() I get a Moran's I value which is the same as the expected value and a P-value of 1. I