search for: rda

...perhaps not stable? The first errors have to do with the libtool version. I have libtool 2.2.6 on my system, which is what the README-maintainer-mode file states I need. Do I need to upgrade to libtool 2.2.7a? ------------------------------- /usr/bin/gcc-4.2 -DHAVE_CONFIG_H -I. -I../../.././rda/qe -I.. -I../../.././rda/qe -I../../.././rda/qe/../include -Wimplicit -Wreturn-type -Wcomment -Wtrigraphs -Wformat -Wparentheses -Wpointer-arith -g -O2 -MT qe.o -MD -MP -MF .deps/qe.Tpo -c -o qe.o ../../.././rda/qe/qe.c mv -f .deps/qe.Tpo .deps/qe.Po /bin/bash ../libtool --tag=CC --mode=li...

...-------- ---- ---- ---- 0 05-05-03 15:32 faraway/ 0 05-05-03 15:32 faraway/chtml/ 8158 05-05-03 15:32 faraway/CONTENTS 0 05-05-03 15:32 faraway/data/ 1864 05-05-03 15:32 faraway/data/00Index 1777 05-05-03 15:32 faraway/data/babyfood.rda 1373 05-05-03 15:32 faraway/data/beetle.rda 589 05-05-03 15:32 faraway/data/bliss.rda 2921 05-05-03 15:32 faraway/data/breaking.rda 2729 05-05-03 15:32 faraway/data/cathedral.rda 5909 05-05-03 15:32 faraway/data/chicago.rda 2181 05-05-03 15:32 farawa...

Hello I try to fit a LDA and RDA model to the same data, which has two classes. The problem now is that the training errors of the LDA model and the training error of the RDA model with alpha=0 are not the same. In my understanding this should be the case. Am I wrong? Can someone explain what the reason for this difference could b...

Dear all, I'm performing RDA on plant presence/absence data, constrained by geographical locations. I'd like to constrain the RDA by the "extended matrix of geographical coordinates" -ie the matrix of geographical coordinates completed by adding all terms of a cubic trend surface regression- . This is the comma...

...;. I understand that this is not considered wise any more (if it ever was), so that I want to change to LazyData "yes" with the next release (which will also get some additional catalogues). I have tried out using separate data files in the data directory (like before) and one sysdata.rda file in the R directory (exporting all catalogues from the namespace); there is a large difference in the installed sizes between those two ways: the approach with sysdata.rda uses only about half the size of the separate data files approach (5.6 Mb vs 11.7Mb). As I would like to be able to qu...

If save() fails because an object is not found, it should not overwrite an existing file. > a <- 1:9 > save(a, file = "a.rda") > rm(a) > load("a.rda") > a [1] 1 2 3 4 5 6 7 8 9 > rm(a) > save(a, file = "a.rda") Error in save(a, file = "a.rda") : object 'a' not found > load("a.rda") Error in load("a.rda") : error reading from connec...

Hi, Does anyone know how to export .RDA file (in R program) to a normal text file (readable by any text editor)? Also, how to export an object in R program into a text file (not .RDA file)? Thank you. Jittima

Hi Im using the VEGAN package to do an RDA ordination. In my plot I get my environmental scores as arrows/vectors, but my species scores as points. I would like to get the species scores as arrows as well. I tried the envfit function, and this creates arrows, but the lenght is not proportionate to the strengh of the correlation and the po...

I've tried a few things both with prcomp(), and rda() and its friends in vegan (including biplot.rda and ordiplot), but can't find a solution. I'd like to associate subsets of the points in a resulting biplot ("sites" in the rda object) with different plotting colors/text styles to emphasize certain sets of points. I can't figu...

Hi, I have a set of gene expression data in .RDA file. I have downloaded Bioconductor and R program for analyzing these data. Anyway, I am not sure how to open this RDA file in R program (what is the command?) in order to look at these data. And which package should I use for analyzing it e.g. plot the expression image? Thank you. Jittima

Dear all, I did a RDA and when I looked to the signification of the test with permutest, the output was non-significant. But when I used the envfit function, some of the vectors are significant. All the test's conditions are respected. What it means? Is it an error in the script? Commands and output: > permute...

...anade Hobart 7001 TAS ph (+61) 3 6232 5118 fax (+61) 3 6232 5012 mob (+61) 438 315 623 Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > system.time( load( 'd:/r2.0/t1.rda')) user system elapsed 0.5 0.0 0.5 > system.time( load( 'd:/r2.0/t1.rda')) # same file; slower user system elapsed 3.5 0.0 3.5 > system.time( load( 'd:/r2.0/t1.rda')) user system elapsed 4.13 0.00 4.13 > system.time( lo...

Hi everyone, sorry if this was discussed before (and in this situation, could you please point me to the discussion in the archive? My search didn't seem to be effective). Is there a way of getting the names of objects in a .rda file without having to load it? Thank you very much, benilton -- PhD Candidate Department of Biostatistics Bloomberg School of Public Health Johns Hopkins University

Dear R users, I know, the topic is more related to the r-sig-ecology. I decided to post it to the r-help as some specific topics of my question deals with NA-values and RDA (R vegan) and an adaptated RDA code due to a specific study design (including a second matrix). I am calculating a RDA for a dependent matrix (different variables for tree performance) and different explanatory variables (species identitiy, diversity, soil data, ground vegetation). I would v...

...PCNetS } else if (BCR_SWSTYLE(s) != 3) { - rmd->rmd2.zeros = 0; + ((uint32_t *)rmd)[2] = 0; cpu_physical_memory_read(addr+4, (void *)&rmd->rmd1, 4); cpu_physical_memory_read(addr, (void *)&rmd->rmd0, 4); } else { - uint32_t rda[4]; - cpu_physical_memory_read(addr, - (void *)&rda[0], sizeof(rda)); - ((uint32_t *)rmd)[0] = rda[2]; - ((uint32_t *)rmd)[1] = rda[1]; - ((uint32_t *)rmd)[2] = rda[0]; - ((uint32_t *)rmd)[3] = rda[3]; + uint32_t rda[2]; + cpu_phys...

Dear users, I would like to process all the lists from all *.rda files that I have in one folder. Up to now, I can load all the *.rda files without any problem. The problem is when I want to access the list saved within each *.rda file (only one list per rda file). Here is my code: fpath <- "D:/R" listnames <- list.files(path=fpath, pattern=g...

...drogram(hres) as.dendrogram(hres) `dendrogram' with 2 branches and 380 members total, at height 2514.513 plot(hresd,leaflab="none") #<-error here. #the plotted dendrogram is incomplete. The x axis is not drawn. #The interested reader can download the save(hresd,file="hres.rda") #from the following loacation www.molgen.mpg.de/~wolski/hres.rda Yours /E --please do not edit the information below-- Version: platform = i386-pc-mingw32 arch = i386 os = mingw32 system = i386, mingw32 status = Patched major = 2 minor = 0.0 year = 2004 month = 10 day = 04...

I'm trying to perform a RDA analysis in the vegan package using the "varpart" function. I have a matrix of community structure data in different sites (rows), which I want to explain using 3 matrices of environmental data. The 3 matrices are: water quality parameters; local land use variables; total land use va...

Dear all, I am using RDA to study plant communities in various land uses (variable LU with values M, U, etc.). For each land use, I sample 3 to 5 fields (M1, M2, U1, U2, etc). I make 5 measurements for both plant communities and environmental variables in each field. I repeat the process every 6 months to study the effect...

I've got something that might be a clue to understand the strange behaviour of lda in R --gui="gnome": in R --vanilla: library(MASS) load("mod23puriflda.rda") > a <- lda.default(x=mod23puriflda[,2:5],grouping=mod23puriflda[,6],CV=F) works fine. I save lda.default as a local rda file: > milda.nognome <- lda.default > save(milda.nognome,file="milda.nognome.rda") Then in R --vanilla --gui="gnome" library(MASS) l...