May 2005 Archives by author

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Starting: Sun May 1 00:28:00 CEST 2005
Ending: Tue May 31 20:45:29 CEST 2005
Messages: 441

• [BioC] R package for visualising quantitative data on bacterial genomes   michael watson (IAH-C)
• [BioC] Limma final gene expression report   michael watson (IAH-C)
• [BioC] Limma final gene expression report   michael watson (IAH-C)
• [BioC] saving graphs   michael watson (IAH-C)
• [BioC] NA instead of block row and ID and column values   michael watson (IAH-C)
• [BioC] LIMMA - No residual degrees of freedom in linear model fits   michael watson (IAH-C)
• [BioC] LIMMA - No residual degrees of freedom in linear model fits   michael watson (IAH-C)
• [BioC] limma reading wrong column for GPR files   michael watson (IAH-C)
• [BioC] Post-Doctoral Training Fellow   christopher leeds (JIC)
• [BioC] Bioc Training: 21-23 July 2005, Boston   Vincent Carey 525-2265
• [BioC] Re: Sequence alignment for DNA sequences (John Zhang)   Aedin
• [BioC] Annotation packages: Which Unigene Release?   Aedin
• [BioC] Mapping Image ID's and Affy probesets   Aedin
• [BioC] AFFYMETRIX MISMATCH   Marta Agudo
• [BioC] experiment-design-advice-request   Naomi Altman
• [BioC] Large # of significant genes with SAM   Naomi Altman
• [BioC] is-normalisation-really-required   Naomi Altman
• [BioC] AffylmGUI Comparisons and Filtering   Quentin Anstee
• [BioC] Binary regression trees   Arne.Muller at sanofi-aventis.com
• [BioC] factorial experiment matrix design   Mikko Arvas
• [BioC] segmentation error in pamr.knnimpute   Alice Le Bars
• [BioC] Re: Re: segmentation error in pamr.knnimpute   Alice Le Bars
• [BioC] Large # of significant genes with SAM   Charles C. Berry
• [BioC] rmaPLM vs fitPLM   Ben Bolstad
• [BioC] question of medianpolish in RMA   Ben Bolstad
• [BioC] Data columns read by LimmaGUI   Brooke-Powell, Elizabeth
• [BioC] Help with Duplicates   Brooke-Powell, Elizabeth
• [BioC] custom affy chip, mm values with NA (affy, makecdfenv)   James Bullard
• [BioC] custom affy chip, mm values with NA (affy, makecdfenv)   James Bullard
• [BioC] Affymetrix SDK Bioconductor package?   James Bullard
• [BioC] Passing a Bioconductor environment to a function   Raffaele Calogero
• [BioC] gcrma problem under Debian - SOLVED   Stefano Calza
• [BioC] ask for some code to remove absent genes   Stefano Calza
• [BioC] expresso   Alexander C Cambon
• [BioC] error with the function GOHyperG from GOstats package   Sabrina Carpentier
• [BioC] Spot with high ratio but low cy3?   Cheng, Meng-Chuan
• [BioC] loading gal file using read.Galfile() in marray?   Cheng, Meng-Chuan
• [BioC] rmaPLM vs fitPLM   Ariel Chernomoretz
• [BioC] alternate /tmp for Bioconductor install   Robert Citek
• [BioC] alternate /tmp for Bioconductor install   Robert Citek
• [BioC] alternate /tmp for Bioconductor install   Robert Citek
• [BioC] alternate /tmp for Bioconductor install   Robert Citek
• [BioC] alternate /tmp for Bioconductor install   Robert Citek
• [BioC] alternate /tmp for Bioconductor install   Robert Citek
• [BioC] Re: Ways to help Bioc   Robert Citek
• [BioC] Open Source Convention 2005   Robert Citek
• [BioC] End2End Lab Material   Cymering at aol.com
• [BioC] Defining your own chromosome annotations   Sean Davis
• [BioC] order   Sean Davis
• [BioC] A question about the construction of a node-link graph based on incident matrix   Sean Davis
• [BioC] limma how to ignoring background   Sean Davis
• [BioC] limma how to ignoring background   Sean Davis
• [BioC] How to filter genes according to the intensities of both channels for cDNA array?   Sean Davis
• [BioC] How to plot the graph object   Sean Davis
• [BioC] Limma final gene expression report   Sean Davis
• [BioC] Limma final gene expression report   Sean Davis
• [BioC] Limma final gene expression report   Sean Davis
• [BioC] Large # of significant genes with SAM   Sean Davis
• [BioC] quality data check   Sean Davis
• [BioC] NA instead of block row and ID and column values   Sean Davis
• [BioC] lmFit, weights and A   Sean Davis
• [BioC] error opening corPlot.R   Sean Davis
• [BioC] ChIP on Chip normalization   Sean Davis
• [BioC] (no subject)   Sean Davis
• [BioC] cDNA data   Sean Davis
• [BioC] limma example Weaver Data   Sean Davis
• [BioC] Bug in marray, indexing single gene in maInd2Coord   Marcus Davy
• [BioC] LIMMA ignoring background   Marcus Davy
• [BioC] loading gal file using read.Galfile() in marray?   Marcus Davy
• [BioC] lmFit, weights and A   Marcus Davy
• [BioC] alternate /tmp for Bioconductor install   Marcus Davy
• [BioC] alternate /tmp for Bioconductor install   Marcus Davy
• [BioC] limma reading wrong column for GPR files   Marcus Davy
• [BioC] AffyProbes abd genome   Hrishikesh Deshmukh
• [BioC] AffyProbes abd genome   Hrishikesh Deshmukh
• [BioC] AffyProbes abd genome   Hrishikesh Deshmukh
• [BioC] Large # of significant genes with SAM   Vincent Detours
• [BioC] Large # of significant genes with SAM   Vincent Detours
• Ignore previous message!!!!!! Re: [BioC] Large # of significant genes with SAM   Vincent Detours
• [BioC] Large # of significant genes with SAM   Vincent Detours
• [BioC] Limma final gene expression report   Ramon Diaz-Uriarte
• [BioC] Agilent vs. Codelink vs. Applied?   Ramon Diaz-Uriarte
• [BioC] GeneSpring can call R functions?   Ramon Diaz-Uriarte
• [BioC] Agilent vs. Codelink vs. Applied?   Ramon Diaz-Uriarte
• [BioC] Limma, get the ranking position of a specific gene...   Ramon Diaz-Uriarte
• [BioC] ChIP on Chip normalization | Shorth   David Lee Duewer
• [BioC] GO with mu11ksuba(b)   Steffen Durinck
• [BioC] Rat 230 2.0 annotation package   Steffen Durinck
• [BioC] cDNA data   E Motakis, Mathematics
• [BioC] cDNA data (raw)   E Motakis, Mathematics
• [BioC] Limma, get the ranking position of a specific gene...   E.Marchi
• [BioC] AffyBatch to ProbeSet? SpikeIn and Hgu-133?   Mohammad Esad-Djou
• [BioC] AffyBatch to ProbeSet? SpikeIn and Hgu-133?   Mohammad Esad-Djou
• [BioC] <no subject>   Mohammad Esad-Djou
• [BioC] HG-U133A-tag and SpikeIn   Mohammad Esad-Djou
• [BioC] affycomp and data.frame   Mohammad Esad-Djou
• [BioC] affycomp and data.frame   Mohammad Esad-Djou
• [BioC] affycomp, *.CEL and *.CSV files   Mohammad Esad-Djou
• [BioC] affycomp and info.txt?   Mohammad Esad-Djou
• [BioC] Re: affycomp and info.txt? (fwd)   Mohammad Esad-Djou
• [BioC] Re: affycomp and info.txt? (fwd)   Mohammad Esad-Djou
• [BioC] affycomp and info.txt? --> method.name and .data.frame   Mohammad Esad-Djou
• [BioC] affycomp: info.txt is Ok, new error message   Mohammad Esad-Djou
• [BioC] Re: affycomp: info.txt is Ok, new error message   Mohammad Esad-Djou
• [BioC] Not Available / "Missing" Values   Mohammad Esad-Djou
• [BioC] as.numeric and NA   Mohammad Esad-Djou
• [BioC] as.numeric and NA   Mohammad Esad-Djou
• [BioC] quality data check   Gustavo H. Esteves
• [BioC] VSN problem in windows   Seth Falcon
• [BioC] segmentation error in pamr.knnimpute   Seth Falcon
• [BioC] End2End Lab Material   Seth Falcon
• [BioC] expresso   Seth Falcon
• [BioC] GO with mu11ksuba(b)   Seth Falcon
• [BioC] metadata zzz.R files use delay - breaks r-devel,   Seth Falcon
• [BioC] metadata zzz.R files use delay - breaks r-devel,   Seth Falcon
• [BioC] makecdfenv bug   Seth Falcon
• [BioC] mas5calls stops with an error   Seth Falcon
• [BioC] R terminated when i try HOPACH in a loop,why?   Seth Falcon
• [BioC] the edgeNames( ), and the label for the edge in a node-edge plot created in Graphviz   Seth Falcon
• [BioC] mas5calls *STILL* stops with an error   Seth Falcon
• [BioC] Limma Load failed   Seth Falcon
• [BioC] Windows error messages   Seth Falcon
• [BioC] Windows error messages   Seth Falcon
• [BioC] make own CDF package probelm, error:couldn't find function "make.cdf.env"   Seth Falcon
• [BioC] Bioconductor 1.6 released and available for download   Seth Falcon
• [BioC] alternate /tmp for Bioconductor install   Seth Falcon
• [BioC] bug in resourcerer2BioC in Resourcerer package   Seth Falcon
• [BioC] alternate /tmp for Bioconductor install   Seth Falcon
• [BioC] error opening corPlot.R   Seth Falcon
• [BioC] alternate /tmp for Bioconductor install   Seth Falcon
• [BioC] Re: Working flow_own CEL file reading problem   Seth Falcon
• [BioC] Trouble with Bioconductor1.6 installation, R version 2.1.0a, MacOS X 10.3.9   Seth Falcon
• [BioC] alternate /tmp for Bioconductor install   Seth Falcon
• [BioC] bioconductor 1.6, R 2.1.0a: "can't locate file for: -lcc_dynamic"   Seth Falcon
• [BioC] how to run the pre-2.0.0 install add-on package   Seth Falcon
• [BioC] Error with Rgraphviz   Seth Falcon
• [BioC] Cannot install Bioconductor 1.6 Binaries from within R 2.1.0a on Mac OS X 10.4   Seth Falcon
• [BioC] alternate /tmp for Bioconductor install   Seth Falcon
• [BioC] Error with Rgraphviz   Seth Falcon
• Ways to help Bioc (was: [BioC] alternate /tmp for Bioconductor install)   Seth Falcon
• [BioC] annotation problem with hgu133plus2   Seth Falcon
• [BioC] End2End Lab Material   Cecilia Fernandez
• [BioC] VSN problem in windows   Elmer Fernandez
• [BioC] Missing probesets ~ commentary from the cheap seats ...   Richard Finney
• [BioC] is-normalisation-really-required   Gregor GORJANC
• [BioC] GCRMA error   Puhong Gao
• [BioC] GCRMA error   Puhong Gao
• [BioC] GCRMA error   Puhong Gao
• [BioC] simLL method in GOstats   Robert Gentleman
• [BioC] Missing probesets   Robert Gentleman
• [BioC] Installation of e1071 failed   Robert Gentleman
• [BioC] How to plot the graph object   Robert Gentleman
• [BioC] metadata zzz.R files use delay - breaks r-devel,   Robert Gentleman
• [BioC] question about using matchPattern in the Biostrings package   Robert Gentleman
• [BioC] homology packages and LocusLink IDs   Robert Gentleman
• [BioC] Windows error messages   Robert Gentleman
• [BioC] Re: Sequence alignment for DNA sequences (John Zhang)   Robert Gentleman
• [BioC] Bioconductor 1.6 released and available for download   Robert Gentleman
• [BioC] GOstats citation   Robert Gentleman
• [BioC] affycomp and info.txt? --> method.name and .data.frame   Robert Gentleman
• [BioC] question about using bioconductor vignettes   Robert Gentleman
• [BioC] Mapping Image ID's and Affy probesets   Robert Gentleman
• [BioC] simLL method in GOstats to measure distances between yeast genes   Robert Gentleman
• [BioC] GOHyperG function with ath1121501   Robert Gentleman
• [BioC] Error with Rgraphviz   Jeff Gentry
• [BioC] Windows error messages   Giulio Di Giovanni
• [BioC] Windows error messages   Giulio Di Giovanni
• [BioC] GOHyperG function with ath1121501   Thomas Girke
• [BioC] maQualityPlots (qpHexbin) question   Rob J Goedman
• [BioC] cDNA data (raw)   Jeremy Gollub
• [BioC] How to apply mt.maxT to a group of raw p values   Wuming Gong
• [BioC] "Special" characters in URI   Gorjanc Gregor
• [BioC] "Special" characters in URI   Gorjanc Gregor
• [BioC] limma   Anita Grigoriadis
• [BioC] boost package   Gu, Joyce
• [BioC] eBayes giving warning, should I trust the result?   Guoneng
• [BioC] garbage collector?   Kasper Daniel Hansen
• [BioC] End2End Lab Material   Kasper Daniel Hansen
• [BioC] [how to] cel files -> directly to expression level   Kasper Daniel Hansen
• [BioC] How to filter genes according to the intensities of both channels for cDNA array?   Kasper Daniel Hansen
• [BioC] [how to] cel files -> directly to expression level   Kasper Daniel Hansen
• [BioC] alternate /tmp for Bioconductor install   Kasper Daniel Hansen
• [BioC] as.numeric and NA   Kasper Daniel Hansen
• [BioC] Tiger, R, Bioconductor   Cyrus Harmon
• [BioC] metadata zzz.R files use delay - breaks r-devel,   Cyrus Harmon
• [BioC] Tiger, R, Bioconductor   Cyrus Harmon
• [BioC] metadata zzz.R files use delay - breaks r-devel,   Cyrus Harmon
• [BioC] metadata zzz.R files use delay - breaks r-devel,   Cyrus Harmon
• [BioC] makecdfenv bug   Cyrus Harmon
• [BioC] make own CDF package probelm, error "installed < 2.0.0"   Liqun He
• [BioC] make own CDF package probelm, error "installed < 2.0.0"   Liqun He
• [BioC] makeProbePackage problem   Liqun He
• [BioC] problem with impute.knn in the impute package   He, Yiwen (NIH/CIT)
• [BioC] bg.correct.gcrma?   Ann Hess
• [BioC] A question about the construction of a node-link graph based on incident matrix   Wolfgang Huber
• [BioC] Large # of significant genes with SAM   Wolfgang Huber
• [BioC] quality data check   Wolfgang Huber
• [BioC] Error installing genefilter   Wolfgang Huber
• [BioC] loading gal file using read.Galfile() in marray?   Wolfgang Huber
• [BioC] ChIP on Chip normalization   Wolfgang Huber
• [BioC] ChIP on Chip normalization   Wolfgang Huber
• [BioC] cDNA data   Wolfgang Huber
• [BioC] Announcement: Otto Warburg International Summer School on Networks and Regulation, August 26 - September 4, 2005, Berlin, Germany   Wolfgang Huber
• [BioC] as.numeric and NA   Wolfgang Huber
• [BioC] FDR adjustment in LPE   Jain, Nitin
• [BioC] question about using bioconductor vignettes   Michael Janis
• [BioC] expresso problem   Jianping Jin
• [BioC] expresso   Jianping Jin
• [BioC] expresso   Jianping Jin
• [BioC] mas5   Jianping Jin
• [BioC] commands of affy and moderated t statistics in experiments   David Kipling
• [BioC] error opening corPlot.R   David Kipling
• [BioC] error opening corPlot.R   David Kipling
• [BioC] AffyProbes and genome   David Kipling
• [BioC] how to normalize by columns   David Kipling
• [BioC] Rat 230 2.0 annotation package   David Kipling
• [BioC] Cannot install Bioconductor 1.6 Binaries from within R 2.1.0a on Mac OS X 10.4   Chris Kirchberg
• [BioC] How to plot the graph object   Dirk Koschuetzki
• [BioC] quality data check   Marcelo Luiz de Laia
• [BioC] Error installing genefilter   Marcelo Luiz de Laia
• [BioC] mas5calls stops with an error   Emmanuel Levy
• [BioC] mas5calls *STILL* stops with an error   Emmanuel Levy
• [BioC] Limma, lmFit "subscript out of bounds" error   Emmanuel Levy
• [BioC] MIAMI   Simon Lin
• [BioC] Negative Values (?!) loaded by affy package from CEL file of MOE430A   Simon Lin
• [BioC] question of medianpolish in RMA   Simon Lin
• [BioC] limma example Weaver Data   Wenbin Liu
• [BioC] limma example Weaver Data   Wenbin Liu
• [BioC] A question about the construction of a node-link graph based on incident matrix   Yilin Liu
• [BioC] A question about the construction of a node-link graph based on incident matrix   Yilin Liu
• [BioC] How to plot the graph object   Yilin Liu
• [BioC] the edgeNames( ), and the label for the edge in a node-edge plot created in Graphviz   Yilin Liu
• [BioC] AffyBatch to ProbeSet? SpikeIn and Hgu-133?   James MacDonald
• [BioC] make own CDF package probelm, error:couldn't find function "make.cdf.env"   James MacDonald
• [BioC] mas5   James MacDonald
• [BioC] Passing a Bioconductor environment to a function   James MacDonald
• [BioC] PLIER -- low values?   James MacDonald
• [BioC] CDF package for wheat Affymetrix chip   James W. MacDonald
• [BioC] q value package - query   James W. MacDonald
• [BioC] GCRMA error   James W. MacDonald
• [BioC] GCRMA error   James W. MacDonald
• [BioC] saving graphs   James W. MacDonald
• [BioC] AFFYMETRIX MISMATCH   James W. MacDonald
• [BioC] LIMMA: how to assign file name   James W. MacDonald
• [BioC] AffyBatch to ProbeSet? SpikeIn and Hgu-133?   James W. MacDonald
• [BioC] make own CDF package probelm, error "installed < 2.0.0"   James W. MacDonald
• [BioC] make own CDF package probelm, error "installed < 2.0.0"   James W. MacDonald
• [BioC] makeProbePackage problem   James W. MacDonald
• [BioC] error opening corPlot.R   James W. MacDonald
• [BioC] Working flow_own CEL file reading problem   James W. MacDonald
• [BioC] error opening corPlot.R   James W. MacDonald
• [BioC] Working flow_own CEL file reading problem   James W. MacDonald
• [BioC] AffyProbes abd genome   James W. MacDonald
• [BioC] AffyProbes abd genome   James W. MacDonald
• [BioC] how to dat cel files   James W. MacDonald
• [BioC] Rat 230 2.0 annotation package   James W. MacDonald
• [BioC] question of medianpolish in RMA   James W. MacDonald
• [BioC] Missing probesets   Malick.PAYE at eu.biomerieux.com
• [BioC] Installation of e1071 failed   Malick.PAYE at eu.biomerieux.com
• Réf. : Re: [BioC] Missing probesets ~ commentary from the cheap seats ...   Malick.PAYE at eu.biomerieux.com
• [BioC] Problem with cdf file   Malick.PAYE at eu.biomerieux.com
• [BioC] ChomoViz atomic error   Morten Mattingsdal
• [BioC] ChomoViz atomic error   Morten Mattingsdal
• [BioC] Pretty HTML Vignette Error   Mecham, Brigham H
• [BioC] bug in resourcerer2BioC in Resourcerer package   Xijiang Miao
• [BioC] using nlme correlation structures in limma?   Jacob Michaelson
• [BioC] mas5   Crispin Miller
• [BioC] warning message from duplicateCorrelation in limma   Na, Ren
• [BioC] warning message from duplicateCorrelation in limma   Na, Ren
• [BioC] warning message from duplicateCorrelation in limma   Na, Ren
• [BioC] PLIER -- low values?   Tarun Nayar
• [BioC] Limma Load failed   Trent J Nelson
• [BioC] moe430v2 annotation package?   Fatima Nunez
• [BioC] moe430v2 annotation package?   Fatima Nunez
• [BioC] PEAK PROBABILITY CONTRASTS (PPC) package   Stephen Nyangoma
• [BioC] LIMMA: Unbalanced technical replicates   Ron Ophir
• [BioC] Error in AnnBuilder writeAnnData2Pkg   Georg Otto
• [BioC] Error in AnnBuilder writeAnnData2Pkg   Georg Otto
• [BioC] Error in AnnBuilder writeAnnData2Pkg   Georg Otto
• [BioC] limma how to ignoring background   M PEREZ
• [BioC] limma how to ignoring background   M PEREZ
• [BioC] limma how to ignoring background   M PEREZ
• [BioC] LIMMA - "Subscript out of bounds" error   Ankit Pal
• [BioC] Limma final gene expression report   Ankit Pal
• [BioC] Limma final gene expression report   Ankit Pal
• [BioC] Exporting data from R . Number of duplicates in an array   Ankit Pal
• [BioC] Limma final gene expression report   Ankit Pal
• [BioC] Limma final gene expression report   Ankit Pal
• [BioC] Deciding on a cut off after QC   Ankit Pal
• [BioC] Deciding on a cut off after QC   Ankit Pal
• [BioC] Deciding on a cut off after QC   Ankit Pal
• [BioC] Deciding on a cut off after QC   Ankit Pal
• [BioC] Deciding on a cut off after QC   Ankit Pal
• [BioC] Deciding on a cut off after QC   Ankit Pal
• [BioC] The meaning of NA in all the result summary   Ankit Pal
• [BioC] NA instead of block row and ID and column values   Ankit Pal
• [BioC] NA instead of block row and ID and column values   Ankit Pal
• [BioC] Error after eBayes function   Ankit Pal
• [BioC] LIMMA- Warning message after eBayes function   Ankit Pal
• [BioC] LIMMA- Warning message after eBayes function   Ankit Pal
• [BioC] LIMMA - No residual degrees of freedom in linear model fits   Ankit Pal
• [BioC] LIMMA - No residual degrees of freedom in linear model fits   Ankit Pal
• [BioC] Defining your own chromosome annotations   Palmer, Lance
• [BioC] Re: Defining your own chromosome annotations   Palmer, Lance
• [BioC] (no subject)   Haiyan Pan
• [BioC] GO Tools   Paquet, Agnes
• [BioC] GO Tools   Paquet, Agnes
• [BioC] RE: maQualityPlots (qpHexbin) question   Paquet, Agnes
• [BioC] 100K SNP chips for linkage   Justine Peeters
• [BioC] "Special" characters in URI   Francois Pepin
• [BioC] Sending email with limma?   Francois Pepin
• [BioC] Sending email with limma?   Francois Pepin
• [BioC] Gal file and Limma   M Perez
• [BioC] normexp errors   M Perez
• [BioC] simLL method in GOstats to measure distances between yeast genes   Maria Persico
• [BioC] order   Heike Pospisil
• [BioC] garbage collector?   Dipl.-Ing. Johannes Rainer
• [BioC] garbage collector?   Dipl.-Ing. Johannes Rainer
• [BioC] Deciding on a cut off after QC   Adaikalavan Ramasamy
• [BioC] Deciding on a cut off after QC   Adaikalavan Ramasamy
• [BioC] Agilent vs. Codelink vs. Applied?   Adaikalavan Ramasamy
• [BioC] as.numeric and NA   Adaikalavan Ramasamy
• [BioC] error opening corPlot.R   Swati Ranade
• [BioC] error opening corPlot.R   Swati Ranade
• [BioC] LIMMA question   Richardson, Dawn K
• [BioC] Sequence alignment for DNA sequences   A.J. Rossini
• [BioC] Re: Sequence alignment for DNA sequences (John Zhang)   A.J. Rossini
• [BioC] GeneSpring can call R functions?   A.J. Rossini
• [BioC] How to get p.value from siggenes result?   Holger Schwender
• [BioC] Tiger, R, Bioconductor   David Seo
• [BioC] bioconductor 1.6, R 2.1.0a: "can't locate file for: -lcc_dynamic"   Paul Shannon
• [BioC] How to filter genes according to the intensities of both channels for cDNA array?   Xiao Shi
• [BioC] R terminated when i try HOPACH in a loop,why?   Xiao Shi
• [BioC] question about using matchPattern in the Biostrings package   Xiao Shi
• [BioC] spotSegmentation   Jason Skelton
• [BioC] spotSegmentation   Jason Skelton
• [BioC] modelMatrix question   Jason Skelton
• [BioC] Modelmatrix   Jason Skelton
• [BioC] Deciding on a cut off after QC   Gordon Smyth
• [BioC] Deciding on a cut off after QC   Gordon Smyth
• [BioC] warning message from duplicateCorrelation in limma   Gordon Smyth
• [BioC] Re: normexp errors   Gordon Smyth
• [BioC] Re: how many sample controls at least in moderated t statistics?   Gordon Smyth
• [BioC] limma   Gordon K Smyth
• [BioC] factorial experiment matrix design   Gordon K Smyth
• [BioC] LIMMA: Unbalanced technical replicates   Gordon K Smyth
• [BioC] LIMMA - "Subscript out of bounds" error   Gordon K Smyth
• [BioC] Limma final gene expression report   Gordon K Smyth
• [BioC] Limma, lmFit "subscript out of bounds" error   Gordon K Smyth
• [BioC] LIMMA question   Gordon K Smyth
• [BioC] LIMMA: how to assign file name   Gordon K Smyth
• [BioC] warning message from duplicateCorrelation in limma   Gordon K Smyth
• [BioC] Deciding on a cut off after QC   Gordon K Smyth
• [BioC] Deciding on a cut off after QC   Gordon K Smyth
• [BioC] Limma and Genepix   Gordon K Smyth
• [BioC] Gal file and Limma   Gordon K Smyth
• [BioC] modelMatrix question   Gordon K Smyth
• [BioC] Re: normexp errors   Gordon K Smyth
• [BioC] LIMMA - No residual degrees of freedom in linear model fits   Gordon K Smyth
• [BioC] using nlme correlation structures in limma?   Gordon K Smyth
• [BioC] Re: Bioconductor Digest, Vol 27, Issue 26   Gordon K Smyth
• [BioC] how to normalize by columns   Gordon K Smyth
• [BioC] ebayes giving warning, should I trust the result?   Gordon K Smyth
• [BioC] limma example Weaver Data   Gordon K Smyth
• [BioC] GO with mu11ksuba(b)   Mayte Suarez-Farinas
• [BioC] GO Tools   Mayte Suarez-Farinas
• [BioC] GO Tools   Mayte Suarez-Farinas
• [BioC] Error with Rgraphviz   Mayte Suarez-Farinas
• [BioC] Error with Rgraphviz   Mayte Suarez-Farinas
• [BioC] global normalization   NATALIA F TCHETCHERINA
• [BioC] ChIP on Chip normalization   Ido M. Tamir
• [BioC] Technical replicates are really off - how to fix?   Ken Termiso
• [BioC] GeneSpring can call R functions?   Ken Termiso
• [BioC] Re: [R] Rounding fractional numbers to nearest fraction   Ken Termiso
• [BioC] Large # of significant genes with SAM   Joern Toedling
• [BioC] Binary regression trees   Boris Umylny
• [BioC] Trouble with Bioconductor1.6 installation, R version 2.1.0a, MacOS X 10.3.9   Charlie Whittaker
• [BioC] Re: experiment-design-advice-request (vijayaraj nagarajan)   Christopher Wilkinson
• [BioC] bg.correct.gcrma?   Zhijin Wu
• [BioC] GCRMA error   Zhijin Wu
• [BioC] GCRMA error   Zhijin Wu
• [BioC] Help on using read.Agilent from marray library   Yanqin Yang
• [BioC] annotation package rgu34a   Yanqin Yang
• [BioC] How to get p.value from siggenes result?   Yanqin Yang
• [BioC] annotation package rgu34a   Yanqin Yang
• [BioC] annotation package rgu34a   Yanqin Yang
• [BioC] annotation problem with hgu133plus2   Yanqin Yang
• [BioC] annotation problem with hgu133plus2   Yanqin Yang
• [BioC] make own CDF package probelm, error:couldn't find function "make.cdf.env"   Junshi Yazaki
• [BioC] Working flow_own CEL file reading problem   Junshi Yazaki
• [BioC] Working flow_own CEL file reading problem   Junshi Yazaki
• [BioC] Affy normalized data using cdf env and rma   Junshi Yazaki
• [BioC] homology packages and LocusLink IDs   Lynn Young
• [BioC] homology packages and LocusLink IDs   Lynn Young
• [BioC] GO with mu11ksuba(b)   John Zhang
• [BioC] moe430v2 annotation package?   John Zhang
• [BioC] Error in AnnBuilder writeAnnData2Pkg   John Zhang
• [BioC] Error in AnnBuilder writeAnnData2Pkg   John Zhang
• [BioC] Sequence alignment for DNA sequences   John Zhang
• [BioC] Annotation packages: Which Unigene Release?   John Zhang
• [BioC] LIMMA ignoring background   Guoneng Zhong
• [BioC] limma how to ignoring background   Guoneng Zhong
• [BioC] limma how to ignoring background   Guoneng Zhong
• [BioC] limma how to ignoring background   Guoneng Zhong
• [BioC] saving graphs   Guoneng Zhong
• [BioC] LIMMA: how to assign file name   Guoneng Zhong
• [BioC] Unable to read GPR files for LIMMA   Guoneng Zhong
• [BioC] limma reading wrong column for GPR files   Guoneng Zhong
• [BioC] limma reading wrong column for GPR files   Guoneng Zhong
• [BioC] ebayes giving warning, should I trust the result?   Guoneng Zhong
• [BioC] how to dat cel files   diego arcelli
• [BioC] Mapping Image ID's and Affy probesets   bmecham at fhcrc.org
• [BioC] summarization   claudio.is at libero.it
• [BioC] generalisation in the use of cclust (library cclust)   emmanuelle.anthoine1 at etud.univ-ubs.fr
• [BioC] Sequence alignment for DNA sequences   fhong at salk.edu
• [BioC] Re: Sequence alignment for DNA sequences (John Zhang)   fhong at salk.edu
• [BioC] Error message while executing SAM   g.schramm at dkfz-heidelberg.de
• [BioC] Sending email with limma?   gisberto.cicero
• [BioC] Sending email with limma?   gisberto.cicero
• [BioC] commands of affy and moderated t statistics in experiments   weinong han
• [BioC] commands of affy and moderated t statistics in experiments   weinong han
• [BioC] commands of affy and moderated t statistics in experiments   weinong han
• [BioC] commands of affy and moderated t statistics in experiments   weinong han
• [BioC] how to run the pre-2.0.0 install add-on package   weinong han
• [BioC] how to normalize by columns   diego huck
• [BioC] how to normalize by columns   diego huck
• [BioC] Tiger, R, Bioconductor   stefano iacus
• [BioC] Tiger, R, Bioconductor   stefano iacus
• [BioC] bioconductor 1.6, R 2.1.0a: "can't locate file for: -lcc_dynamic"   stefano iacus
• [BioC] FDR adjustment in LPE   jean-louis.ruelle at gskbio.com
• [BioC] PAMR   joseph
• [BioC] Limma and Genepix   lepalmer at notes.cc.sunysb.edu
• [BioC] Controls and duplicate correlation   lepalmer at notes.cc.sunysb.edu
• [BioC] lmFit, weights and A   lepalmer at notes.cc.sunysb.edu
• [BioC] ask for some code to remove absent genes   zhihua li
• [BioC] problem with impute.knn in the impute package   marcus
• [BioC] experiment-design-advice-request   vijayaraj nagarajan
• [BioC] GOstats citation   jeffrey rasmussen
• [BioC] [how to] cel files -> directly to expression level   s_r
• [BioC] CDF package for wheat Affymetrix chip   ute.baumann
• [BioC] q value package - query   vxravindraku at ualr.edu

Last message date: Tue May 31 20:45:29 CEST 2005
Archived on: Thu Jun 2 15:37:06 CEST 2005

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