similar to: About qvalue

Hello every GNU's, I have a question about mt.plot, on multtest package. I'm wondering how do a plot with test like bonferroni, holm, hochberg,... and also résults of SAM(Significiance Analysis Microarrays) as we can see on several document of Sandrine Dudoit. Thanks a lot and Have a nice day Sandrine --------------------------------------------------------------------------------

Dear all, I''m making a script to implement DiffServ policies with HTB. Here it is : if test $1 = "help" -o $1 = "h" -o $# != 5 then echo "usage: ds.sh <DEVICE> <DS_RATE> <EF_RATE> <AF_RATE> <BE_RATE>" exit fi DEV=$1 DS_RATE=$2 EF_RATE=$3 AF_RATE=$4 BE_RATE=$5 sync tc qdisc del root dev $DEV tc qdisc add dev $DEV root handle

Hi, I am studying Kalman Filter and it seems to be difficult for me to apply the filter on a simple ARMA. It is easy to construct the state-space model, for instance: dlmModARMA(ar=c(0.4,-0.2),ma=c(0.2,-0.1, sigma2=1) but applying the dlmFilter on it, it doesn't work... I don't know if my problem is clear but if anyone has already worked on Kalman filter, it could be great to advise me!

Hello, I wish to use R functions in a C++ programm. I have installed D COM Server but with this application i think it isn't possible to acces mouse event..., is it true? My second idea is to compile libraries which are used, but i haven't source code, and the libraries existing are compiled under unix, but i'd like have .lib and .dll Thanks for your informations Sandrine

Hello List, I'm trying to prepare some lecture notes on non parametric methods, and I can't manually reproduce the results of the wilcox.test function for ordinal data. The data I'm using are from David Howell's website, available here http://www.uvm.edu/~dhowell/StatPages/More_Stuff/OrdinalChisq/OrdinalChiSq.html If I run the wilcox.test function on the data I get a p-value of

Full_Name: Ivan the Terrible Version: 2.9.2 OS: Windows XP SP3 Submission from: (NULL) (89.110.13.151) When using the method blackboost_fit of the package mboost appear following error : Error in party:::get_variables(obj at responses) : trying to get slot "responses" from an object (class "boost_data") that is not an S4 object Simple test case that produce bug:

Hello, I am running R on XP Windows machine, and frequently I have enable to start R. I have this message: "Fatal Error: cannot find unused tempdir name". I don't know why. Thanks, in advance, for your help Sandrine Coelho

To All How does one get a list of functions from a loaded package so that one can then get the appropriate help for each of the functions. Currently my method is based on a lot of trial-and-error. Here's an example of what I mean... >From this forum I learn that an interesting package called "multtest" exists on Bioconductor. I then use R Console's "Packages" --

Hello all, I'm trying to use the package qvalue. Upon trying to install it I'm running into trouble. I re-downloaded and installed the most recent CRAN distribution of R which announced itself to have tcltk included. Now when I try to load qvalue I'm getting errors that seem to indicate that I need tcltk2. I tried going to get that package and loading it but both qvalue and tcltk seem

I am using storey's qvalue package but I keep on getting errors. Why is this? > qvalue(p, lambda=0.5)$pi0 [1] "ERROR: p-values not in valid range." Error in qvalue(p, lambda = 0.5)$pi0 : $ operator is invalid for atomic vectors -- Thanks, Jim. [[alternative HTML version deleted]]

Good Morning Everyone, I was going through my list of FTBFS packages today and I fixed all my R packages but 2: qvalue and xtable. qvalue requires ggplot2 xtable requires: lsmeans, spdep, splm, sphet, plm I am not doing any R anymore these days and in fact spot has been the one maintaining most of my R packages these days (thanks spot!!), so I am not really interested in maintaining more R

Dear colleagues, This is not strictly a R question, but I hope it is ok to ask on the list. I fed a vector of p-values from about 20 million anova tests to the package q-value and obtained this output: > qsummary(asso_p.qvalue) Call: qvalue(p = asso_p.vec) pi0: 1 Cumulative number of significant calls: <1e-04 <0.001 <0.01 <0.025 <0.05 <0.1 <1

Dear All, In Storey's estimator of the proportion of true nulls, the estimator depends on the tuning parameter lamda. Suppose now that an estimator of this proportion has been obtained by the qvalue package, what is the lamda that corresponds to the estimate? How to get this lamda? Thanks, -Chee [[alternative HTML version deleted]]

Had some packages fail install so I updated to today's R-beta release. On updating packages the following packages still fail. sessionInfo follows. Mark Warning messages: 1: In install.packages(update[instlib == l, "Package"], l, contriburl = contriburl, : installation of package 'MANOR' had non-zero exit status 2: In install.packages(update[instlib == l,

Anyone know if coin can run a permutation test based on a (user-defined) statistic other than the mean difference? The function independence_test does the permutation t-test via difference in means. I'm wondering if it's possible to use independence_test to run a permutation test for some other statistic than the difference in means. For example, I'd like to run a permutation test

I am new and for sure I did something stupid I trying to use dovecot with sendmail but I am receiving this error teststat deliver(usertest): net_connect(/var/run/dovecot/auth-master) failed: Permission denied stat=Deferred: local mailer (/usr/libexec/dovecot/deliver) exited with EX_TEMPFAIL on send mail I added FEATURE(`local_procmail', `/usr/libexec/dovecot/deliver',`deliver -d

Hello, Would you tell my how to extract a result from a test - it's justified because I need to run this test many times. Here is an example from authors' test: > library("coin") > lungtumor <- data.frame(dose = rep(c(0, 1, 2), c(40, 50, 48)), tumor = c(rep(c(0, 1), c(38, 2)), rep(c(0, 1), c(43, 7)), rep(c(0, 1), c(33, 15)))) > ca.test<-independence_test(tumor ~

Hi All, I'm new to R and am trying to run a unit root test on the vector "y" (a time series of inflation (i.e. changes in the Consumer Price Index quarter on quarter)). I've run the Augmented-Dickey-Fuller Test below (R's URCA package). It gives me an error that it cannot find the function ur.df unless I comment out the third last line of code (see below). I try to call

Dear R users, I am trying to perform a hypothesis test on a marked point pattern. I would like to calculate the mean of the absolute value of the difference of marks between nearest neigbours, randomize the marks among points, then calculate this mean again. Ideally, I would test whether random mean values smaller than the observed mean value occur less than 5% of the time. I suppose 1000

Dear fellow R users, Keywords: Kruskal-Wallis, Post-Hoc, pair-wise comparisons, Nemenyi-Damico-Wolfe-Dunn test, coin package, oneway_test I am using the "oneway_test" function in the R package "coin" and I am obtaining results which I cannot believe are accurate. I do not wish to waste anyone's time and so if the following problem is rather trivial, I apologize, however I