[R] cluster package
Hi list, I am doing cluster analysis using the cluster package. I created a dendrogram using the function plot(agnes(myData)). When I try to change the sise of labels, it does not work. I tried cex = 1.5, etc. Nothing worked. Can anyone give me a hint on how to change the sise of the labels, as well as the sise of axes labels. Thanks Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] cluster analysis of microarray data
Hi list, I am interested in cluster analysis of microarray data. The data was generated using cDNA method and a loop design. I was wondering if any one has a suggestion about which package I can use to analyse such data. Many thanks in advance Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- Echte DSL-Flatrate dauerhaft für 0,- Euro*. Nur noch kurze Zeit! __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
[R] rbind
Hi list, I have been trying to pileup dataframes with different column names using rbind. I am getting the following error message. I was wondering if there is a way to go around this minor problem? Error in match.names(clabs, names(xi)) : names don't match previous names: G Thanks indeed for your information Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- Echte DSL-Flatrate dauerhaft für 0,- Euro*! __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] malloc: vm_allocate(size=381886464) failed (error code=3)
Hi all, I am having memory allocation problem with my R 2.2.1 for Mac OS. The following is the error message that I get. I do not get this message if I break down the large dataset in to sub datasets. I think breaking up the dataset is not a sustainable solution in the long run. The data that I am analysing is essentially big, and it would be reasonable to do the analyis on the whole dataset without even considering to partition it. So I was really wondering if you could give me a clue about how to handle this problem. model6 -lm(logintens~ factor (slide) + factor(ind) + factor(dye) + factor(id)*factor(l6) + factor(rep)-1, data=sample_data2) *** malloc: vm_allocate(size=381886464) failed (error code=3) *** malloc[387]: error: Can't allocate region *** malloc: vm_allocate(size=381886464) failed (error code=3) *** malloc[387]: error: Can't allocate region *** malloc: vm_allocate(size=381886464) failed (error code=3) *** malloc[387]: error: Can't allocate region *** malloc: vm_allocate(size=381886464) failed (error code=3) *** malloc[387]: error: Can't allocate region *** malloc: vm_allocate(size=381886464) failed (error code=3) *** malloc[387]: error: Can't allocate region Thanks for your help in advance Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- Echte DSL-Flatrate dauerhaft für 0,- Euro*! __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Memory problem
Hi list, I am analysing a large dataset using random coefficient (using nlme) and fixed effects (using lm function) models. I have problem with my R version 2. 2. 1 due to memory allocation difficulties. When I try to expand the memory I get the following error message. R --min-vsize=1000 --max-vsize=10 --min-nsize=500 --max-nsize=1000 Error: target of assignment expands to non-language object R --min-vsize=1000 --max-vsize=5 --min-nsize=500 --max-nsize=1000 Error: target of assignment expands to non-language object I am working on Mac OS X Power PC G5 platform. I was wondering if anybody could give me a hint on how to solve this problem. Thanks in advance for your help Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- Bis zu 70% Ihrer Onlinekosten sparen: GMX SmartSurfer! Kostenlos downloaden: http://www.gmx.net/de/go/smartsurfer __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] lme help
Hi list, I am fitting microarray data (intensity) model using the lme package in R environment. I have 5 fixed variables in the model. One of the fixed variables is genes. I am trying to get p-values for different genes. But I am getting only one p-value for all genes together. I can get a list of p-value when I run lm. Why can't this work in lme? My aim is to do multiple comaprison of all the genes that I have and I can only do this if I have a list of their p-vales I was wondering if you can help me solve this problem. That is getting a list of p-value for each gene in the model using the lme. Thanks in advance for your help Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] lme question
Hi list, I am fitting microarray data (intensity) model using the lme package in R environment. I have 5 fixed variables in the model. One of the fixed variables is genes. I am trying to get p-values for different genes. But I am getting only one p-value for all genes together. I can get a list of p-value when I run lm. Why can't this work in lme? I was wondering if some one can help me solve this problem. That is getting a list of p-value for each gene in the model using the lme. Thanks in advance for your help Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- DSL-Aktion wegen großer Nachfrage bis 28.2.2006 verlängert: GMX DSL-Flatrate 1 Jahr kostenlos* http://www.gmx.net/de/go/dsl __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Xemacs
Hi all, How can I stop my xemacs from lauching R whenever it starts? I want to use the usual M-x R instead. This is something I have to edit in the init file. Thanks Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] post hoc analysis after anova
Dear list, This is a simple question but I spent an hour on it without success. So I sorry to bother you. I fit a linear model lm and then did anova. My idea is to run multiple pairwise comparision for several factor variables (f1, f2, f3, f4 each with its own levels, say 0, 1, 3 etc )at the same time and get statistics for each factor's levels. The statistics I want is just the basic one such as mean standard error. I tried the pairwise.t.test, but I could not do what I wnated to. I was wondering if anyone has idea about how I can accopmlish this task? Thanks a lot for your tips and help Greetings Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] R under suse linux 9.3
Hi, dear list members, I've been using R under windows XP and I am now changing my system to SUSE LINUX 9.3. I could figure out that there is no precompiled version of R for LINUX. To get me going, I would like your help regarding what I need to setup R under my SUSE LINUX. Which compiler do I need to be able to compile the source and I was wondering if I could get GNU compiler? I highly appreciate your help and for taking your time. Looking forward to hearing from you Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] glm
Hi, list, I have got a dataset on soil and plant. I would like to fit a glm to my data. My response variable is percentage data. That is percent of plant root length colonized by Arbuscular micorrhiza fungi. Because of the nature of my data, I am not quite sure whether gamma or gaussian distribution is suitable for this type of data. If I use gamma distribution, which link function is appropriate? I appreciate your suggestions very much. Thanks in advance! Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- Geschenkt: 3 Monate GMX ProMail gratis + 3 Ausgaben stern gratis ++ Jetzt anmelden testen ++ http://www.gmx.net/de/go/promail ++ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] updating packages
Dear list, I have been trying to resolve the following problem for a couple of hours, but couldn't get around. I updated my R pacages from CRAN which went somoothly. However, updating HTML is not going well. I got the following error message: 1: Package R2HTML is in use and will not be installed. 2: Number of rows of results is not a multiple of vector length (arg 1) in cbind (pkgs, lib). This happend after I configured my xemacs init to use xemacs as GUI for R. The communication between my xamcs and R is going perfectly well and fantastic. I am wondering if anyone can give me a hint on why R2HTML is not updating itself. Thank you very much for your time and help Regards Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] ESS
Hi all, I have got a dataframe in coma delimted text format. My ESS and R processes are working well and active. I can read R help files and documentations from inside ESS. Can I perform anayltical operations such as (glm, plot ect) on elements of my dataframe (variables) from within ESS? I could do these tasks directly in Rconsole and would like to them in ESS directly. How can I sumbit commandlines relevant to my datafrom to R? Thanks for your help Cheers Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- DSL Komplett von GMX +++ Supergünstig und stressfrei einsteigen! AKTION Kein Einrichtungspreis nutzen: http://www.gmx.net/de/go/dsl __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] ESS
Hi all, I am running R 2.0.1 under Windows XP in German. I configured my path as follows: C:\Programme\R\rw2001\bin;C:\Programme\xemacs-packages\lib-src\;C:\Programme\XEmacs-21.4.13\i586-pc-win32 I can not start R proccess or ESS from within XEmacs. What is going wrong? I can not start S. M-x S gives no matching How can I configure XEmacs for STATA 8? Thanks for your help. M -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- DSL Komplett von GMX +++ Supergünstig und stressfrei einsteigen! AKTION Kein Einrichtungspreis nutzen: http://www.gmx.net/de/go/dsl __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] sgeostat
Hi, list, I am using 'sgeostat' package by Albrecht Gebhardt and I am trying to put a correlation coefficient of some kind on the lagplots. Is there a possiblity to do so? Thanks Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- GMX im TV ... Die Gedanken sind frei ... Schon gesehen? Jetzt Spot online ansehen: http://www.gmx.net/de/go/tv-spot __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] sw
Hi list, I am just a new user of R. How can I run stepwise regression in R? Is there a graphic user interphase for any of the spatial packages inculded in R, such as gstat, geoR and someothers. I am mainly interested interactive variogram modelling and mapping. Thanks Mahdi -- --- Mahdi Osman (PhD) E-mail: [EMAIL PROTECTED] --- 10 GB Mailbox, 100 FreeSMS http://www.gmx.net/de/go/topmail __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
