similar to: step-down bootstrap multiple comparisons in R?

Dear all, I was trying to understand how "multcomp" package works by running the examples given in the documentation. However I still don't understand when it comes to multiple comparison set by user (please refer to "Ksub" in the code). Therefore I run 2 other cases along with the original example (case 1), with the expectation I'll get the point from the output. The

You can get help on the whole package by > help(package="multtest") which is likely pretty close to what you want. There's the index etc for the package on the web as well. You can also just look in the package's installation directory. If it's loaded you can do an ls(2) say if it loaded in position 2, to get all objects in the package. Reid -----Original Message-----

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" --

New package `multcomp' for general multiple comparisons written by Frank Bretz, Torsten Hothorn and Peter Westfall We've uploaded the package `multcomp' to CRAN. The R package allows for multiple comparisons of k groups in general linear models. We use the unifying representations of multiple contrast tests, which include all common multiple comparison procedures, such as the

New package `multcomp' for general multiple comparisons written by Frank Bretz, Torsten Hothorn and Peter Westfall We've uploaded the package `multcomp' to CRAN. The R package allows for multiple comparisons of k groups in general linear models. We use the unifying representations of multiple contrast tests, which include all common multiple comparison procedures, such as the

I have been running R CMD check for the first time on of our own packages, which otherwise builds, installs and runs just fine. The package depends on package akima and suggests package multtest; suggesting multtest is indicated because a) it loads a lot of other Bioconductor packages, very slowly, and b) it is only needed for one specific subroutine, which executes require(multtest)

Full_Name: Ken Kompass Version: 2.2.0 OS: winXP pro (2002 version, SP2) Submission from: (NULL) (128.252.149.244) Using R2.2.0 I get this error msg when loading certain bioconductor libraries (depending on whether the library contains file named "all.rda" in R folder of library) : > library(multtest) Error in open.connection(con, "rb") : unable to open connection In

Hi, Installing from binaries on Windows: > install.packages("multtest") Warning: dependency 'Biobase' is not available trying URL 'http://cran.fhcrc.org/bin/windows/contrib/2.12/multtest_2.6.0.zip' Content type 'application/zip' length 1645590 bytes (1.6 Mb) opened URL downloaded 1.6 Mb package 'multtest' successfully unpacked

I spent a number of hours at one of the local SF clubs turning a desktop into a dual-boot (if they ever need that for anything) CentOS 6.4 system, then trying to install Evergreen, an oss library package. Can you say, "dependency hell"? I suspect they wrote it on Ubuntu (this is client/server software, dunno why they'd do that). At any rate, I yum installed the postgresql 9.x

Hello! I downloaded a package "multtest" (from bioconductor.org) in R, and installed it by 'R CMD <package>' (after unzipping and taring). The problem is when I say 'library(multtest)' in R, the following error is generated: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library

Hi, thanks for the report - but it should have gone to the Bioconductor list, and the package maintainer, thanks. New versions of multtest and a few other packages will percolate up in the next few days to resolve the problem. Best wishes, Robert kompass at vision.wustl.edu wrote: > Full_Name: Ken Kompass > Version: 2.2.0 > OS: winXP pro (2002 version, SP2) > Submission

Hi, With recent versions of R-devel, "R CMD check" complains about some "Rd files with unknown sections". hpages at gladstone:~> R CMD check multtest_1.9.4.tar.gz ... ... * checking Rd files ... WARNING Rd files with unknown sections: /home/hpages/multtest.Rcheck/00_pkg_src/multtest/man/boot.resample.Rd: notes

Environment is samba-3.0.10-1.4E.6 RedHat ES4, kernel 2.6.9-34.0.2.ELsmp AD domain Win2003 SP2 Native mode This system was initially setup in ads security mode, joined to a Win 2003 AD domain and configured to use winbind for both samba file shares and authz/authn for sshd and local logins. In this configuration the winbind idmap was the default local database. Everything worked fine. Users could

Hi Nguyen, > Subject: [R] install "multtest" and "preprocessCore" packages in > Bioconductor library > Date: Wed, 30 Nov 2011 09:57:36 -0800 > From: UyenThao Nguyen <unguyen at tethysbio.com> > To: r-help <r-help at r-project.org> > CC: uth.nguyen at ucdavis.edu <uth.nguyen at ucdavis.edu> > > Hi All, > > I've tried to

Dear useRs, `multcomp' version 0.991-1 will be shortly available from CRAN near you. Nearly all functionality contained in the package has been re-implemented from scratch. The focus of the package has been extended to general linear hypotheses in arbitrary parametric models and the most important function to check out is `glht()'. Multiple comparison of means procedures (for example

Dear useRs, `multcomp' version 0.991-1 will be shortly available from CRAN near you. Nearly all functionality contained in the package has been re-implemented from scratch. The focus of the package has been extended to general linear hypotheses in arbitrary parametric models and the most important function to check out is `glht()'. Multiple comparison of means procedures (for example

Hi I'm encountering an error/warning when doing multiple comparisons with the package multcomp on a coxme model. My data: I'm looking at the removal of brood from the nest according to three treatments I applied on the brood. The brood and the workers caring about the brood in the nest, belonged to different colonies. Factor: treatment (3 levels: tx,uv,meta) Random effect 1: origin of

I've seen that RHEL 7 beta is out for some time now: is there a CentOS version of that beta? If not, is it likely to be a real pain, once CentOS 7 is released, to upgrade from RHEL 7 beta to CentOS 7? Reason for this: at one of my local sf clubs, I've been trying to install Evergreen, F/OSS library software, on a system, and it's a nightmare. They seem to have been building it for

Hi, everyone, I haven't found anything similar in the forum, so here's my problem (I'm no expert in R nor statistics): I have a data set of 59.000 cases with 9 variables each (fractional coverage of 9 different plant types, such as deciduous broad-leaved temperate trees or evergreen tropical trees etc.), which was generated by a vegetation model. In order to evaluate the quality of

Dear all, I am trying to validate a model by comparing simulated output values against observed values. I have produced a simple X-y scatter plot with a 1:1 line, so that the closer the points fall to this line, the better the 'fit' between the modelled data and the observation data. I am now attempting to quantify the strength of this fit by using a statistical test in R. I am no