similar to: Qtl - package - Question

Dear R community, I need to plot the results of some simulations I did using QTL Cartographer. I am plotting LOD scores over three chromosomes. The three plot have to be one next to the other. The procedure I am using is: par(mfrow=c(1,3)) plot(x$x, x$y, ylim=c(0,35), type="l", col="blue", las=1, xaxs="i", yaxs="i", xlab="X Chromosome",

Hi, I'm using R for a QTL analysis of SNP data. I was wondering if anyone had any advice on fitting a dominance effect into the following function; > myfun4 function (x) { x <- scan(con, nmax=169) y <- unique(x[which(!is.na(x))]) if(length(y)>1) { summary(lme(Ad ~ x, random= ~1|sire, na.action="na.omit")) } else {print("no.infomation")} } Con is the

Could you help me in getting a package to compile from source in Windows? I'm running Windows NT 4.0 on a pentium 450 with 128 Mb of Ram. I've got R 1.0.0. I am developing a package for R which includes a bit of C code. I have things working in Unix just fine, and now I want to port it to Windows NT. I've been following the instructions in the R complements to Venables and

On Mon, 8 Nov 2004 ssim at lic.co.nz wrote: > > Is there an add-on package in R for QTL interval mapping for outbred > population, eg. Haley-Knott regression method ? > > Stella I believe Karl Broman's R/QTL (http://biosun01.biostat.jhsph.edu/~kbroman/software/) and Brian Yandell's bim (http://www.stat.wisc.edu/~yandell/qtl/software/), Richard Mott's happyR

Hello R-users! I have a style question. I know that for loops are somewhat frowned upon in R, and I was trying to figure out a nice way to do something without using loops, but figured that i could get it done quickly using them. I am now looking to see what kind of tricks I can use to make this code a bit more aesthetically appealing to other R users (and learn something about R along the

Dear all, I am running qtl mapping. I have 75 RI lines with some residual heterogeneous loci. The loci are code A, B or H(heterogeneous). Questions: 1) R/qtl determine the data is F2 intercross. 2) Warning message about strange genotype pattern > library(qtl) > dat=read.cross("csv", file="rqtl_trt.csv") --Read the following data: 75 individuals

Hi R, I tried to install one local source package---"qtl" into R, but failed with the following message. I am using Macbook OS 10.8.3 with Xcode 4.6.1. ld: warning: directory not found for option '-L/usr/local/lib' ld: library not found for -lgfortran collect2: ld returned 1 exit status make: *** [qtl.so] Error 1 ERROR: compilation failed for package ¡®qtl¡¯ * removing

Hello... I tried to compile an R addon package, R/qtl on a Solaris machine and I get this error. I know that R/qtl complies correctly on other platforms (Windows, Mac, Linuxes, etc), so I am wondering what the problem might be. Any ideas? Thanks, Saunak ----------------------------------- /export/home/sen/tmp <howrahbridge> <pts/5> R INSTALL

On Fri, Aug 11, 2023, at 2:58 PM, Rowland Penny via samba wrote: > On Fri, 11 Aug 2023 14:03:01 +0200 > Kasper Brandt via samba <samba at lists.samba.org> wrote: > > > Hello > > I was directed to discuss this issue here. As I understand the issue > > with using the unquoted variable is that it expand globs unless > > noglob is set. E.g. > > > >

---------- Forwarded message ---------- From: Waqas Shafqat <waqas1518@gmail.com> Date: Fri, Sep 6, 2013 at 10:31 PM Subject: To: rosyara@msu.edu sorry sir i have istalled plantbreeding libraray..but when i give command "require(plantbreeding)" then following message appear > require(plantbreeding) Loading required package: plantbreeding Loading required package: qtl Failed

On Fri, 11 Aug 2023 14:03:01 +0200 Kasper Brandt via samba <samba at lists.samba.org> wrote: > Hello > I was directed to discuss this issue here. As I understand the issue > with using the unquoted variable is that it expand globs unless > noglob is set. E.g. > > root at dy3:/# test="b*" > root at dy3:/# a=($test) > root at dy3:/# echo ${a[0]} > bin

Hello I was directed to discuss this issue here. As I understand the issue with using the unquoted variable is that it expand globs unless noglob is set. E.g. root at dy3:/# test="b*" root at dy3:/# a=($test) root at dy3:/# echo ${a[0]} bin It does seem a bit hypothetical that the output of sambatool dns query ... for an A record should contain a glob, but for the sake of robustness it

Sorry: resending this; didn't have a title on it. Trying to set up multiple spawns of R ------------------------------------------- Hi. I'm new to the list but I have a small problem with R. I'm trying to set up multiple spawns of R active at the same time on an AMD with a dual core in Vista so that I can cut down my permutation processing time. I've installed R in multiple

Hi I made heatmap of QTL based on Lod score. Where I have traits in columns and marker data (rows). I can not cluster both column and rows as I need the right order for marker data. Can someone suggest me better way of generating heatmaps especially the colour key I want to select to visualize the results which are more interesting to look at. > library(gplots) >

Hi, If you have multiple players installed on your PC/Mac .m3u will always open the last media player who are the default in charge of the extension and mime m3u. On your web site you want maybe to force a link to open real media player or quicktime/itune. You need to create a .pls to force winamp loading the streaming because windows media player won't open .pls etc. If you add a .pls

This allows to overlay bad sectors according to the mapfile generated by ddrescue, to then see where sectors are used using fsck and trying to copy files around. Signed-off-by: Fran?ois Revol <revol at free.fr> --- configure.ac | 2 + filters/ddrescue/Makefile.am | 75 +++++++ filters/ddrescue/ddrescue.c | 211

Dear lists, Is there an add-on package in R for QTL interval mapping for outbred population, eg. Haley-Knott regression method ? Tanx Stella ___________________________________________________________________________ This message, including attachments, is confidential. If you are not the intended recipient, please contact us as soon as possible and then destroy the message. Do not copy,

This allows to overlay bad sectors according to the mapfile generated by ddrescue, to then see where sectors are used using fsck and trying to copy files around. Signed-off-by: Fran?ois Revol <revol at free.fr> --- configure.ac | 2 + filters/ddrescue/Makefile.am | 75 +++++++ filters/ddrescue/ddrescue.c | 218

Dear UseR, I get an error when I run "R CMD check" on my .tar.gz file package, and I don't understand why since I don't obtain any error with "R CMD check" on the package directory. Do you have any idea ? $ sudo ./R-2.11.0/bin/R CMD check eqtl_1.1.tar.gz and $ sudo ./R-2.11.0/bin/R CMD --check-subdirs=no eqtl_1.1.tar.gz return an Error * checking for working

Hello, I'm trying to get the count of values in each row that are above and below quantile thresholds. Thanks! Example: > x = matrix(1:30,5,6) > x [,1] [,2] [,3] [,4] [,5] [,6] [1,] 1 6 11 16 21 26 [2,] 2 7 12 17 22 27 [3,] 3 8 13 18 23 28 [4,] 4 9 14 19 24 29 [5,] 5 10 15 20 25 30 > qtl = t(apply(x, 1,