similar to: install a package made using bioconductor package pdInfoBuilder

I would like to build a package for the HT HG-U133+ PM arrays from affy, but I can't find any good documentation on how to go about it. Naively using makecdfenv's make.cdf.package() causes R to seg-fault. I'm unfamiliar with the CDF format as such, but I'm guessing that it's changed somewhat because the PM arrays no longer have P/A and mismatches. I'm looking to build

I must have missed something simple, but still, i don't know what. I obtained my basic data as follows: x <- sprintf("SELECT m_id,sale_date,YEAR(sale_date) AS sale_year,WEEK(sale_date) AS sale_week,return_type,0.0001 + DATEDIFF(return_date,sale_date) AS elapsed_time FROM `merchants2`.`risk_input` WHERE DATEDIFF(return_date,sale_date) IS NOT NULL") moreinfo <- dbGetQuery(con,

Hi, I am a Ph.D. student from Québec, Canada. I’m a beginner with R and Bioconductor. Until now the only experience I have is in analyzing microarray data using affy and limma packages. Now I am trying to analyze Rat Gene 10 st arrays and I would like to run RMA analysis and Smyth moderated t test on those arrays. Since no cdf official package is available for those arrays, after reading many

I am feeling rather dumb right now. I created what I thought was a data.frame as follows: aaa <- lapply(split(moreinfo,list(moreinfo$m_id),drop = TRUE), fun_m_id) m_id_default_res <- do.call(rbind, aaa) print("==========================================") m_id_default_res print("==========================================") ndf <- m_id_default_res[, c('mid',

The second beginner question. I want to create a new dataframe, where each element of the original dataframe is translated to 1 if it was "+", to 0 if it was "-" to -1 otherwise. I could do with: Lines <- "a b c d + - + + + + + - + 1 - '+ ' - + + + + N - +" DF <-

Hello! I have a function: zywnoscCalosc<- function( jedzenie, n1, n2, n3, n4, d1, d2, d3, d4 ) { ndf <- data.frame(nn1=n1,nn2=n2,nn3=n3,nn4=n4) ddf <- data.frame(dd1=d1,dd2=d2,dd3=d3,dd4=d4) for (i in 1:length(n1)){ wekt_n = ndf[i,] wekt_n_ok = wekt_n[!is.na(wekt_n)] dl_n = length(wekt_n_ok) wynik = (1*wekt_n_ok)/(1*dl_n) } } and I get an error like this: Error in 1 * wekt_n_ok :

Hello, I want to know what do you think about my function. I know that it isn't briliant :/ but what do you think? What I should do that my function will be better? (now is very slow and not ideal, sometimes I also get a mistake!) ########## My function ############################################# dzieci<-transform(dzieci, zywnosc=0) zywnoscCalosc<- function( jedzenie, sklep, n1, n2,

Hi, I have run into another problem using offsets, this time with the predict function, where there seems to be a contradiction again between the behavior and the help page. On the man page for predict.lm, it says Offsets specified by offset in the fit by lm will not be included in predictions, whereas those specified by an offset term in the formula will be. While it indicates nothings about

Full_Name: Gerard Torrent Version: R version 2.8.0 (2008-10-20) OS: Linux 2.6.27.5-41.fc9.x86_64 #1 SMP Submission from: (NULL) (85.52.227.233) In some cases qt complains about NaNs and don't gives the correct result: > qt(0.1,, 0.1) [1] NaN Warning message: In qt(p, df, lower.tail, log.p) : NaNs produced But the result can be found: > pt(-1.60443e+06, 0.1) [1] 0.09999997 If I

Dear all: I have encountered a problem recently: I used to plot figure, and using code "main="......", xlab=".....",ylab="....." to change the legend. But recently I was using R to perform Discriminant Function analysis, and I want to change the group names also add a title to the figure, but I am not sure how to make it work, could you please help me with my

In one particular situation predict.coxph gives an error message. Namely: stratified data, predict='expected', new data, se=TRUE. I think I found the error but I'll leave that to you to decide. Thanks, Chris ######## CODE library(survival) set.seed(20121221) nn <- 10 # sample size in each group lambda0 <- 0.1 # event rate in group 0 lambda1 <- 0.2 # event rate in group 1

Hello, I am a new user of R and Linux (debian squeeze), and I am trying to install the ncdf library. First I don't know wich is the best to use (ncdf or ncdf4), But not matter the one I tried to install, it always failled. I try to find a solution to this common problem on the web, but I never find the good way to solve it. I hope you could help me I try many things during two days and now I

How can I extract the adjusted R^2 value from an ols object (using rms package)? library(rms) x <- rnorm(10) y <- x + rnorm(10) ols1 <- ols(y ~ x) Typing "ols1" displays adjusted R^2 among other things, but how can I assign it to a variable? I tried str(ols1) but couldn't see where to go from there. Thanks, Mark Seeto

v2: use the same object for private data as with the drm debugfs functions Signed-off-by: Karol Herbst <nouveau at karolherbst.de> --- drm/nouveau/nouveau_debugfs.c | 54 +++++++++++++++++++++++++++++++++++++++++-- 1 file changed, 52 insertions(+), 2 deletions(-) diff --git a/drm/nouveau/nouveau_debugfs.c b/drm/nouveau/nouveau_debugfs.c index 5392e07..fe53743 100644 ---

Patch 4 pcie_portdrv.patch: PCI-Express AER implemetation: pcie_portdrv error handler. It implements error handlers for pcie_portdrv. Signed-off-by: Zhang Yanmin <yanmin.zhang@intel.com> Signed-off-by: Greg Kroah-Hartman <gregkh@suse.de> Thanks& Regards, Criping _______________________________________________ Xen-devel mailing list Xen-devel@lists.xensource.com

This question will probably get me in trouble on theoretical grounds, but I will pose it anyway. The situation: I recently ran a field study looking for differences in sugarbeet cultivar tolerance to a specific herbicide. The study was set up so that 37 cultivars were treated with 4 different applications of the herbicide (37*4 factorial). In doing so, we found that the interaction effect was

From: poma <pomidorabelisima at gmail.com> Switch from "silly" S_* macros to "definitely more readable" octal "way" permissions, moreover to not "so restrictive" module parameters permissions. Suggested-by: Ilia Mirkin <imirkin at alum.mit.edu> Fixes: poma <pomidorabelisima at gmail.com> Tested-by: poma <pomidorabelisima at

Salutations: I have been trying to translate a S-PLUS/ArcInfo (GIS software) application that I wrote on a SGI (IRIX) platform to public domain R and GrassGIS on a Linux platform. I am almost on the verge of abandoning it as I find R to be rather unstable, slow and frustrating. I enclose a section of my code for R experts to examine hoping that they'll point out that all the above three are

Hi, This patch implements a minimal getpwnam() function in tftpd.c. The reason for the patch is that I needed tftpd to work in my embedded system, which are without libnss*. The patch has been tested, and works for me. Please consider it. Best regards, jules -- Jules Colding <JuBColding at yorkref.com> York Refrigeration diff -urN tftp-hpa-0.34.orig/tftpd/Makefile

I made a little changes in this series: 1. merge the two last patches together 2. unify the private data interface with the drm debugfs one now it should be very obvious for a new dev on how to add new files to debugfs and how to get access to the nouveau structs Karol Herbst (5): debugfs: add infrastructure to add files with other fops than only read debugfs: rename functions to