search for: marrayclass

I'm seeing weird issues in methods initialization, i.e. loading marrayClasses loads Biobase, and when explicitly done, as in library(Biobase) library(marrayClasses) is fine, but when Biobase is loaded via a require statement in marrayClasses' .First.Lib, I end up with: Warning message: In the method signature for function "coerce", class "e...

Hi How do I install "gregmisc" packages? I did- % sudo R > install.packages("gregmisc") . . > barplot2() but, Error: couldn't find function "barplot2" -- atuya Mac OSX 10.2.6 R 1.7.1

Hello, I'm a french student working on a project concerning cDNA microarray. I've chosen to work with R and use the marrayClasses, marrayInput (...) packages. First, when I enter "library(marrayInput)", R warns me about a missing package called "utils" but I can't find it anywhere. Normally this package is installed when you install "base" package. Moreover when I call a function of the &q...

...hing from CRAN, including RMySQL, RmSQL, XML, rpvm, rsprng, RMpi, but not ROracle, RSQLite, RQuantlib -- Lindsay packages rmutil, gnlm, stable, growthm repeated, event, ordinal -- Bioconductor packages Biobase, annotate, affy, AnnBuilder, edd, genefilter, geneplotter, rhdf5, marrayTest, marrayClasses, marrayInput, marrayPlots, multtest, ROC, tkWidgets -- snow from Tierney -- deal from gR -- from Devel Dopt, GRASS, PHYLOGR, R2HTML, RPgSQL, dseplus, pls, runstat, multidim, mclust, ensemble, locfit, write-snns -- from OmegaHat gtk, OOP, RGtk, RGtkViewers, RObjectTables, RSPerl, RSPython...

...GOstat, goTools, ontoTools) -- Improved interfaces (limmaGUI, affylmGUI, webbioc, -- MAGE file processing (RMAGEML) -- affymetrix processing: many improvements, gcrma, affypdnn (probe-dependent nearest neighbors), affyPLM (probe-level models). -- marray (next generation of the depreciated marrayClasses, marrayNorm, marrayPlots, marrayTools packages) -- General analysis tools (rama, qvalue, pickgene, EBarrays, impute, pamr, bim, ) -- QA/QC (arrayMagic, arrayQuality, LPE) -- sequence analysis (pairseqsim, Biostrings) -- interface to the GeneSpring data analysis program (GeneSpring) T...

...tatively verify finite sample properties and outlier robustness of the parameter estimation in vsn(). -- TOOLS: The released packages include tools which facilitate: * annotation (AnnBuilder, annotate). * data management and organization through the use of the S4 class structure (Biobase, marrayClasses, limma). * identification of differentially expressed genes and clustering (edd, genefilter, geneplotter, multtest, ROC, limma) * analysis of Affymetrix expression array data (affy, affycomp, gcrma) * diagnostic plots and normalization for cDNA array data (marrayInput, marrayNorm, ma...

...tatively verify finite sample properties and outlier robustness of the parameter estimation in vsn(). -- TOOLS: The released packages include tools which facilitate: * annotation (AnnBuilder, annotate). * data management and organization through the use of the S4 class structure (Biobase, marrayClasses, limma). * identification of differentially expressed genes and clustering (edd, genefilter, geneplotter, multtest, ROC, limma) * analysis of Affymetrix expression array data (affy, affycomp, gcrma) * diagnostic plots and normalization for cDNA array data (marrayInput, marrayNorm, ma...