similar to: plot Geneland result in a map

I do the these passages: library(Geneland) set.seed(1) data <- simdata(nindiv=200, coord.lim=c(0,1,0,1) , number.nuclei=5 , allele.numbers=rep(10,20), IBD=FALSE, npop=2, give.tess.grid=FALSE) geno <- data$genotypes coord <- t(data$coord.indiv) path.mcmc <-

I am receiving the above error ( full r session output below) the script runs OK in windows. and "genotypes" and "ploidy" are both correct arguments any suggestions would be most welcome Nevil Amos MERG/ACB Monash University School of Biological Sciences > library(Geneland) Loading required package: RandomFields Loading required package: fields Loading required

Dear list, I am trying to replace Unicode notation of German and Spanish special characters (as read in by read.csv from excel spreadsheets) by character strings that can be interpreted by LaTeX. E.g.: uni2latex <- function(x){ x <- gsub("&", "et", x, fixed = TRUE) # Deutsch x <- gsub("\u0080", "\\\"A", x, fixed = TRUE) x

Hi Wondering if anyone knows of a package that does Nested Clade Analysis? Thanks -- View this message in context: http://www.nabble.com/Nested-Clade-Analysis-tp20637180p20637180.html Sent from the R help mailing list archive at Nabble.com.

Dear all, I was testing the wonderful package APE. However upon testing a particular Newick's format tree - which I think to be a non-binary tree - it yields different result as expected. > library(ape) > tree.hiv <- read.tree(text="(rat,mouse,(human,chimp));") > is.binary.tree(tree.hiv) [1] TRUE Was that a bug in APE package? - Gundala Viswanath Jakarta - Indonesia

Dear list, After searching many old posts, I can't find the solution to a simple problem. can someone tell me how to create a character string with multiple backslashes, as in: file_dir <- c("C:\files\data\") I need to create this string and then paste it to many files names for batch processing in another software program. R won't accept the backslash and removes

Hi all, I would like to multithread that script, to detect structure from multilocus genetic data : >library(Geneland) > >geno = read.table("cot966gen_test.txt") #the file is show after >MCMC(geno.dip.codom = geno, varnpop=T, npopmax=20, spatial = F, nit=100000, thinnin=100, path.mcmc="./") >PostProcessChain(path.mcmc="./", nxdom=100, nydom=100,

Hello, I want to import a txt table into R but the software give me this message. I have windows vista. Errore in file(file, "r") : cannot open this connection Besides: Warning message: In file(file, "r") : cannot open file 'C:/Users/Vincenzo/Desktop/prova/prova.txt': No such file or directory thank you **********************************************************

Hi list, The function is.integer tests if an object is of type integer: see e.g.: is.integer(12) # FALSE is.real(12) # TRUE mode(12) # "numeric" But how can I test if a number is actually an integer? R seek is difficult to search in this case because it mainly yields entries about the integer()-function family. Thanks for any hint! Christoph Heibl

I am trying to use the function 'filter.NA=TRUE' in Geneland. The function appears to be set on TRUE by default, as it appears as TRUE in the 'parameter.txt' file output and hence I do not need to enter the function per se (as it is an 'Unused argument otherwise') . Hence all my missing data (individuals that I have not yet scored at that specific loci) are scored as

Dear list, I want to run latex from an R script: system("latex mysource.tex") or: texi2dvi("mysource.tex", pdf = TRUE, clean = FALSE, quiet = TRUE, texi2dvi = latex) but latex does not seem to be on the search path: /bin/sh: line 1: latex: command not found. Although 'printenv PATH' tells me that the usr/texbin is looked for executables:

Hello, This must be simple... Thanks a lot - Christoph # Imagine you have a list, e.g: K <- list(1:10, 2:11, 9:18) K # Transforming to dataframe... KK <- as.data.frame(K) # ... one obtaines the list elements as column. KK # But I need the list elements as rows # How can I achieve this? Is there a simple way to transpose data.frames?

Hi, I have a package of my own which seems to work fine under linux. I want to make a compiled version for windows. (I work with windows 2000 and R 2.0) I have followed the steps described in the file readme.packages (in the top-level directory of the binary installation) and I had a trouble at this step (which aim is not documented): C:\Program Files\R\rw2000\src\gnuwin32>make libR.a

Dear RRRRRrrrrrrrrlist! I?ve got two lists which contain sets of DNA-sequences. They look something like this: List of 33 $ Cunonia_atrorubens : chr [1:247] "t" "t" "n" "t" ... $ Cunonia_balansae : chr [1:254] "t" "c" "c" "c" ... $ Cunonia_capensis : chr

I am getting the above warning following loading of Geneland 3.1.5 on unix , while a simple plot sends output to the pdf file ( see attached code) no output results from Geneland functions, resulting in empty pdf files > library (Geneland) Loading required package: RandomFields Loading required package: fields Loading required package: spam Package 'spam' is loaded. Spam version

Hi , I'm currently trying to make available a few fortran subroutines and R functions (which make interface to these subroutines), as an R package. I'm doing it under linux with R 1.9.0 (but hope to do it for windows too). I have trouble for loading my fortran code. Here are the steps involved : 1) In R: # Create tree for package

On Mon, Jul 4, 2011 at 1:42 AM, Øyvind Harboe <oyvind.harboe at zylin.com> wrote: > On Sun, Jul 3, 2011 at 10:34 PM, Reid Kleckner <reid.kleckner at gmail.com> wrote: >> An easier way would be to use a coverage tool like gcov to see what's >> actually *used* when the app is run normally.  Then you can ask the >> question, what percentage of all lines of code

I am trying to format data for the Geneland package I need to write a series of paired numbers and paired "000" to a plain ascii file without surrounding the numerals with quotes, the original data is in a matrix formatted paired strings, and written to file using write.table(x,"output filename",col.names=F,row.names=F) thus "77 79" "132 132" "000

hi all i'm running debian sid..and i tried to compile the las version of compiz because the old version of compiz did not supported compiz settings.. btw here is what i did: 1) followed the official compiling guide => http://go-compiz.org/index.php?title=Compiling 2) try to run by launching compiz...but the only results was to not view the windows' borders.. so i searched in the

On Sun, Jul 3, 2011 at 10:34 PM, Reid Kleckner <reid.kleckner at gmail.com> wrote: > An easier way would be to use a coverage tool like gcov to see what's > actually *used* when the app is run normally.  Then you can ask the > question, what percentage of all lines of code are dead? We need something that can do this using static analysis... Otherwise we can just use Eclipse