similar to: fdrtool help

Hi, I've just started using R and fdrtool, and I'm not sure if the qvalues I'm receiving back are accurate. I performed fdrtool on pvalues obtained from a two way anova on proteomics data. So I have 266 data values (protein spots) for two factors (ft, vr, and the interaction) for each biological sample. One of the two factors (vr) has a highly significant effect with 119 protein

Hi, I have a data.frame(zscores) that looks like this: gA gB g1 0.2 0.6 g2 0.3 Na My problem is that I need to use a function and the output is a vector of only the non NA values, so shorter than the list I would obtain dropping the data.frame. What is the cleanest way to keep row and column names or putting the values back into the same data frame format? The function

I'm using the monoreg function (with weights) from the fdrtool package. How can I calculate the R square for this type of regression? Thanks for your help, Thierry -- View this message in context: http://www.nabble.com/R-square-for-Monotone-regression-tp15580803p15580803.html Sent from the R help mailing list archive at Nabble.com.

Hello developers, I noticed that if I am running 'R', type "rm(list=objects())" and "gc()", 'R' will still be consuming (a lot) more memory than when I then close 'R' and re-open it. In my ignorance, I'm presuming this is something in 'R' where it doesn't really do a great job of garbage collection... at least not nearly as well as

Hello, I am trying to write an R package for doing analysis of speaker recognition systems. The big thing in this line of research is a DET-plot (detection Error Trade-off, a ROC plot with qnorm() warped axes). My approach has been to make a class "det" and also a function "det()" that will prepare the data into the right class. Now loading the library doesn't like me

I am trying to analyse a mouse dataset with 45000 genes and 24 or 48 timpoints to find cycling genes using GeneCycle. However the function fisher.g.test never runs. I am pasting the input/output summary below. I would be grateful if someone could provide any insight. I 've run GeneCycle successfully in the past on similar data, but I had to reinstall R and the packages again, so this version

Hi, I am new to bioconductor, trying to install KEGGSOAP package, but got warnings() when installing and error message when trying to load the package, can anyone suggest what went wrong? many thanks John > source("http://bioconductor.org/biocLite.R") Bioconductor version 2.11 (BiocInstaller 1.8.3), ?biocLite for help > biocLite("KEGGSOAP") BioC_mirror:

Hello all R-user I am relative new to the R-environment and also to GLMM, so please don't be irritated if some questions don't make sense. I am using R 2.0.0 on Windows 2000. I investigated the occurrence of insects (count) in different parts of different plants (plantid) and recorded as well some characteristics of the plant parts (e.g. thickness). It is an unbalanced design with 21

Hi all, i'm new to R, I need to modelize in R a statistic algorithm, This algo use Weibull, normal law, linear regression, normalisation, root mean square, to find eta and beta fitting the weibull model (to analyse few results) and further when we will get more information apply bayes model . the problem is when When i try to integrate it fails with errors. by the way i like to integrate

I have recently upgraded to Ubuntu Gutsy and, for the first time, am using a 64-bit installation. After failing miserably to install R from source, not a problem for me in the past with a 32-bit install, I went the route of using the Debian Etch build. This went smoothly, but I am unable to update my numerous R and BioConductor packages, getting non-zero exit status errors on each package. Is