June 2003 Archives by thread

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Starting: Sun Jun 1 17:50:20 MET 2003
Ending: Mon Jun 30 23:07:03 MET 2003
Messages: 329

• [BioC] replicates and low expression levels   Robert Gentleman
• [BioC] affyEnvPtr   Laurent Gautier
  • [BioC] affyEnvPtr -- erratum   Laurent Gautier
• [BioC] Re: replicates and low expression levels   Eric
• [BioC] downlading bioc from R script   escalada at fas.harvard.edu
  • [BioC] downlading bioc from R script   Jeff Gentry
• [BioC] (2)trying to download bioc   escalada at fas.harvard.edu
• [BioC] Spot weights   Jason Skelton
• [BioC] (no subject)   alea at interfree.it
  • [BioC] (no subject)   Rafael A. Irizarry
    • [BioC] (no subject)   Laurent Gautier
• [BioC] replicates and low expression levels   Claire Wilson
  • [BioC] replicates and low expression levels   Robert Gentleman
  • [BioC] replicates and low expression levels   Laurent Gautier
• [BioC] replicates and low expression levels   Stephen Henderson
• [BioC] replicates and low expression levels   Crispin Miller
• [BioC] replicates and low expression levels   Stephen Henderson
• [BioC] hgfocuscdf   James MacDonald
  • [BioC] hgfocuscdf   Rafael A. Irizarry
• [BioC] replicates and low expression levels   Gordon Smyth
  • [BioC] replicates and low expression levels   Rafael A. Irizarry
• [BioC] hgfocuscdf   Wei, Wenbin
• [BioC] Spot weights   Gordon Smyth
• [BioC] SAM for R   Cappola, Thomas
  • [BioC] SAM for R   Stephen Eglen
• [BioC] Affy vs. cDNA : Low and not expressed genes   Park, Richard
• [BioC] multtest   Stefanie Scheid
  • [BioC] multtest   Sandrine Dudoit
• [BioC] Errors with latest version of R/Bioconductor   Claire Wilson
  • [BioC] Errors with latest version of R/Bioconductor   Robert Gentleman
  • [BioC] Errors with latest version of R/Bioconductor   Roger D. Peng
• [BioC] quantile normalization   Martino Barenco
  • [BioC] quantile normalization   Laurent Gautier
  • [BioC] quantile normalization   Gordon Smyth
    • [BioC] quantile normalization   Ben Bolstad
    • [BioC] quantile normalization   Gordon Smyth
• [BioC] Affy vs. cDNA : Low and not expressed genes   Adaikalavan Ramasamy
  • [BioC] Affy vs. cDNA : Low and not expressed genes   Laurent Gautier
• [BioC] SAM for R   James MacDonald
• [BioC] SAM for R   Cappola, Thomas
• [BioC] beginner   kfbargad at lg.ehu.es
• [BioC] Adding chips to an existing set of normalised data   Crispin Miller
  • [BioC] Adding chips to an existing set of normalised data   Rafael A. Irizarry
    • [BioC] Adding chips to an existing set of normalised data   w.huber at dkfz-heidelberg.de
• [BioC] beginner   alessandro.semeria at cramont.it
• [BioC] SAM in R and normalization question   Jane Fridlyand
• [BioC] Adding chips to an existing set of normalised data   Park, Richard
  • [BioC] Adding chips to an existing set of normalised data   Rafael A. Irizarry
• [BioC] beginner   alessandro.semeria at cramont.it
• [BioC] Q-values [was: SAM in R and normalization question]   Warnes, Gregory R
• [BioC] Q-values [was: SAM in R and normalization question]   Warnes, Gregory R
• [BioC] Bioconductor   Mikael Oscarson
  • [BioC] Bioconductor   Jeff Gentry
• [BioC] beginner   kfbargad at lg.ehu.es
  • [BioC] beginner   Jeff Gentry
• [BioC] expression values   Jingqin luo
  • [BioC] expression values   Ben Bolstad
    • [BioC] expression values   Jingqin luo
      • [BioC] expression values   Rafael A. Irizarry
• [BioC] beginner   kfbargad at lg.ehu.es
• [BioC] Beginner-Problem solved   kfbargad at lg.ehu.es
• [BioC] beginner   alessandro.semeria at cramont.it
• [BioC] [base] Re: error handling   Carl Troein
• [BioC] Bug in Biobase 1.3.22   Jörg Schlingemann
  • [BioC] Bug in Biobase 1.3.22   Jeff Gentry
• [BioC] Q-values   Warnes, Gregory R
• [BioC] Microarray slide design and data analysis   William Kenworthy
• [BioC] reposTools 1.1.45 not on website version 1.1.43   Dave Waddell
  • [BioC] reposTools 1.1.45 not on website version 1.1.43   Jeff Gentry
• [BioC] help   fire1976 wyoming
• [BioC] New version of annaffy   Colin A. Smith
• [BioC] change working directory command on command line   Tapan Mehta
  • [BioC] change working directory command on command line   Rafael A. Irizarry
  • [BioC] change working directory command on command line   Jeff Gentry
• [BioC] Calculation times   Claire Wilson
  • [BioC] Calculation times   A.J. Rossini
  • [BioC] Calculation times   Jeff Gentry
• [BioC] Calculation times   Claire Wilson
• [BioC] change working directory command on command line   John Zhang
  • [BioC] Bioconductor commands in Unix online documentation request   Tapan Mehta
    • [BioC] Bioconductor commands in Unix online documentation request   Jeff Gentry
    • [BioC] Bioconductor commands in Unix online documentation request   Johannes Hüsing
      • [BioC] Spatial Correction   Justin Borevitz
      • [BioC] Spatial Correction   Rafael A. Irizarry
• [BioC] Affy vs. cDNA : Low and not expressed genes   Adaikalavan Ramasamy
• [BioC] read.GenePix problem.   Ivan Borozan
  • [BioC] read.GenePix problem.   Jean Yee Hwa Yang
    • [BioC] read.GenePix problem.   Ivan Borozan
• [BioC] OT: overlapping oligo sequences   Johannes Hüsing
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] Bioconductor commands in Unix online documentation re quest   Warnes, Gregory R
• [BioC] Bioconductor commands in Unix online documentation request   Adaikalavan Ramasamy
• [BioC] expression values   Ben Bolstad
• [BioC] installing XML in linux   Mahbub Latif
  • [BioC] installing XML in linux   Douglas Bates
    • [BioC] installing XML in linux   Mahbub Latif
      • [R] Re: [BioC] installing XML in linux   Dirk Eddelbuettel
      • [BioC] installing XML in linux   Jeff Gentry
      • [BioC] installing XML in linux   A.J. Rossini
      • [BioC] installing XML in linux   Mahbub Latif
    • [R] Re: [BioC] installing XML in linux   Robert Burrows
      • [R] Re: [BioC] installing XML in linux   Duncan Temple Lang
• [BioC] PSB 2004 - call for papers   Wang, Hui
• [BioC] LIMMA functions   Pingzhao Hu
• [BioC] Golub example from Gentleman and Carey   John E. Cornell, Ph.D.
  • [BioC] Golub example from Gentleman and Carey   Vincent Carey 525-2265
• [BioC] Affy Normalization!   Puhong Gao
  • [BioC] Affy Normalization!   Rafael A. Irizarry
    • [BioC] Affy Normalization!   Puhong Gao
      • [BioC] Affy Normalization!   Rafael A. Irizarry
      • [BioC] Affy Normalization!   Puhong Gao
• [BioC] Difficulty in installing Biobase 1.3.22   lshen at intergate.com
  • [BioC] Difficulty in installing Biobase 1.3.22   Jeff Gentry
• [BioC] Problem using make.cdf.env   Wenqiong Chen
  • [BioC] Problem using make.cdf.env   Rafael A. Irizarry
• [BioC] Re: funnction in LIMMA   Gordon Smyth
• [BioC] Problem using make.cdf.env   Paul Boutros
• [BioC] BUG : mistype in xy2indices, affy version 1.2.27   Pierre-yves Boëlle
  • [BioC] BUG : mistype in xy2indices, affy version 1.2.27   Laurent Gautier
• [BioC] Problem using make.cdf.env   James MacDonald
• [BioC] Probenames appearing as X1234.at   Crispin Miller
  • [BioC] Probenames appearing as X1234.at   Vincent Carey 525-2265
• [BioC] Hist in affy   James MacDonald
  • [BioC] Hist in affy   Rafael A. Irizarry
    • [BioC] Hist in affy   Laurent Gautier
• [BioC] Kooky probe names (followup)   Crispin Miller
  • [BioC] Kooky probe names (followup)   Vincent Carey 525-2265
• [BioC] Probenames appearing as X1234.at   shitao at ucla.edu
  • [BioC] Probenames appearing as X1234.at   Gordon Smyth
• [BioC] Bioconductor and BASE   Lao Saal
  • [BioC] Bioconductor and BASE   A.J. Rossini
    • [BioC] Bioconductor and BASE   Lao Saal
• [BioC] Mailing lists timeout of 17 hours...   Martin Maechler
• [BioC] Milan Package   John Zhang
• [BioC] Problems accessing the Milan package through the vignettes Explorer   John Zhang
• [BioC] Problems accessing the Milan package through the vignettes Explorer   Fátima Núñez
• [BioC] Milan Package   Claire Wilson
• [BioC] Question   Catherine.Eng at stud.unibas.ch
  • [BioC] Question   Robert Gentleman
• [BioC] Bioinformatics postdoctoral position   Kristina Hanspers
• [BioC] Thanks. Problem solved   Fátima Núñez
• [BioC] question abour background subtraction in RMA   James MacDonald
  • [BioC] ad hoc (was :question abour background subtraction in RMA)   Stefano Calza
• [BioC] problem with bioconductor install script   John Zhang
• [BioC] question abour background subtraction in RMA   Antille,Nicolas,LAUSANNE,NRC-BAS
  • [BioC] question abour background subtraction in RMA   mai98ftu at studserv.uni-leipzig.de
• [BioC] problem with bioconductor install script   Bela Tiwari
  • [BioC] problem with bioconductor install script   Jeff Gentry
  • [BioC] problem with bioconductor install script   w.huber at dkfz-heidelberg.de
• [BioC] problem with bioconductor install script   Claire Wilson
• [BioC] can't read any CEL files using ReadAffy   Huang, Mingqian
  • [BioC] can't read any CEL files using ReadAffy   Rafael A. Irizarry
  • [BioC] can't read any CEL files using ReadAffy   Laurent Gautier
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] RE: Dye Swap Experiments   Gordon Smyth
• [BioC] chips A,B and C   James MacDonald
• [BioC] normalize by or across all treatments   Leanna House
  • [BioC] normalize by or across all treatments   Rafael A. Irizarry
  • [BioC] normalize by or across all treatments   Isaac Neuhaus
• [BioC] chips A,B and C   Park, Richard
• [BioC] normalize by or across all treatments   Park, Richard
• [BioC] problems intalling bioconductor on windows NT   James MacDonald
  • [BioC] problems intalling bioconductor on windows NT   Robert Gentleman
  • [BioC] problems intalling bioconductor on windows NT   Jeff Gentry
• [BioC] Biobase/reposTools Dependency   Colin A. Smith
  • [BioC] Biobase/reposTools Dependency   Robert Gentleman
• [BioC] chips A,B and C   Antille,Nicolas,LAUSANNE,NRC-BAS
• [BioC] problems intalling bioconductor on windows NT   martino barenco
• [BioC] Question about R and expresso()   Daniel ~
  • [BioC] Question about R and expresso()   Rafael A. Irizarry
  • [BioC] Question about R and expresso()   Laurent Gautier
• FW: [BioC] normalize by or across all treatments   Stephen Henderson
• [BioC] problem with getBioC()   Antille,Nicolas,LAUSANNE,NRC-BAS
  • [BioC] problem with getBioC()   w.huber at dkfz-heidelberg.de
    • [BioC] problem with getBioC()   Jeff Gentry
• [BioC] Problem Updating Packages   Paul Boutros
  • [BioC] Problem Updating Packages   Jeff Gentry
• [BioC] FAQ seems to be brocken   Oliver Hartmann
• [BioC] Is a set of four arrays suitable for RMA analysis?   Wei, Wenbin
  • [BioC] Is a set of four arrays suitable for RMA analysis?   Rafael A. Irizarry
• [BioC] question about ath1121501cdf package   Wenlei Liu
  • [BioC] question about ath1121501cdf package   Justin Borevitz
    • [BioC] question about ath1121501cdf package   Rafael A. Irizarry
• [BioC] R package for SAM   Holger Schwender
• [BioC] Errors in copy/paste   Claire Wilson
  • [BioC] Errors in copy/paste   Jeff Gentry
• [BioC] read.maimages   leon ding
  • [BioC] read.maimages   Gordon Smyth
• [BioC] problems intalling bioconductor on windows NT   martino barenco
  • [BioC] problems intalling bioconductor on windows NT   Justin Borevitz
  • [BioC] problems intalling bioconductor on windows NT   Jeff Gentry
• [BioC] ath1121501cdf for Bioconductor   Carol Foster
  • [BioC] ath1121501cdf for Bioconductor   Jeff Gentry
• [BioC] ath1121501cdf for Bioconductor   James MacDonald
• [BioC] Error Installation for Genefilter   Lisa Devereaux
• [BioC] Highlighting Multiple Types of Spots on Scatterplots (maPlot)   Stephen Benz
• [BioC] help with getBioC   Gordon Smyth
  • [BioC] help with getBioC   A.J. Rossini
• [BioC] Re: NormalizeForPrintorder   Gordon Smyth
• [BioC] Re: Additional questions regarding LIMMA   Gordon Smyth
• [BioC] Re: LIMMA   Gordon Smyth
• [BioC] Installation problem   Terry Therneau
• [BioC] marrayInput problems following fresh 1.2 install   Barry Henderson
  • [BioC] marrayInput problems following fresh 1.2 install   Rafael A. Irizarry
• [BioC] Problem using make.cdf.env   James MacDonald
• [BioC] Compilation problem installing Bioconductor (RGraphviz)   Peter Baker (CMIS, St Lucia)
  • [BioC] Compilation problem installing Bioconductor (RGraphviz)   A.J. Rossini
• [BioC] Problem using make.cdf.env   Lisa Devereaux
• [BioC] problems intalling bioconductor on windows NT   martino barenco
• [BioC] per gene normalization   leon ding
  • [BioC] per gene normalization   Gordon Smyth
• [BioC] Compilation problem installing Bioconductor (RGraphviz)   Peter Baker (CMIS, St Lucia)
  • [BioC] Compilation problem installing Bioconductor (RGraphviz)   A.J. Rossini
  • [BioC] Compilation problem installing Bioconductor (RGraphviz)   Robert Gentleman
• [BioC] limma question   leon ding
  • [BioC] limma question   Gordon Smyth
• [BioC] MGU74A and MGU74Av2   Susan G. Hilsenbeck
• [BioC] per gene normalization   Gordon Smyth
• [BioC] MGU74A and MGU74Av2   Matthew Hobbs
  • [BioC] MGU74A and MGU74Av2   Rafael A. Irizarry
  • [BioC] MGU74A and MGU74Av2   Laurent Gautier
    • [BioC] MGU74A and MGU74Av2   David O. Nelson
      • [BioC] MGU74A and MGU74Av2   Yongde Bao
      • [BioC] MGU74A and MGU74Av2   David O. Nelson
      • [BioC] MGU74A and MGU74Av2   Ben Bolstad
      • [BioC] MGU74A and MGU74Av2   Matthew Hobbs
      • [BioC] MGU74A and MGU74Av2   Laurent Gautier
• [BioC] Error when running expresso   Kelvin Yen
  • [BioC] Error when running expresso   Rafael A. Irizarry
• [BioC] Updated R package for SAM   Holger Schwender
• [BioC] Problems   Ramzi Feghali
  • [BioC] Problems   Robert Gentleman
• [BioC] RE: Dye Swap Experiments   Gordon Smyth
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] Update not working: Windows rw1071   TyagiAnupam at aol.com
• [BioC] Re: limma and affy (fwd)   Gordon Smyth
  • [BioC] Re: limma and affy (fwd)   Rafael A. Irizarry
• [BioC] Re: limma and affy (fwd)   Gordon Smyth
• [BioC] Re: limma and affy (fwd)   Phguardiol at aol.com
• [BioC] Textual description of affy   Michael Barnes
  • [BioC] Textual description of affy   Ben Bolstad
• [BioC] Volcano plots   James MacDonald
  • [BioC] Volcano plots   Gordon Smyth
  • [BioC] Volcano plots   Matthew Hobbs
• [BioC] Re: limma and affy (fwd)   Gordon Smyth
• [BioC] negative values in from pmonly in dChip   Wenqiong Chen
  • [BioC] negative values in from pmonly in dChip   Laurent Gautier
• [BioC] limma Two-sample model   leon ding
  • [BioC] limma Two-sample model   Gordon Smyth
• [BioC] Volcano plots   kfbargad at lg.ehu.es
• [BioC] maanova background correction   Brendan M. Heavey
• [BioC] maanova background correction   James MacDonald
• [BioC] Error: (subscript) logical subscript too long. Help, please?   Fátima Núñez
• [BioC] Volcano plots   kfbargad at lg.ehu.es
• [BioC] se.exprs in Affy   Mary Putt
  • [BioC] se.exprs in Affy   Ben Bolstad
• [BioC] com.braju.sma   kfbargad at lg.ehu.es
  • [BioC] com.braju.sma   Gordon Smyth
    • [BioC] rma and MM   Justin Borevitz
      • [BioC] rma and MM   Ben Bolstad
      • [BioC] rma and MM   Rafael A. Irizarry
  • [BioC] probe information from cel image   Matthew Hobbs
    • [BioC] probe information from cel image   Laurent Gautier
• [BioC] Volcano plots   James MacDonald
• [BioC] Memory Requirments   Michael Barnes
  • [BioC] plans for binary version of *.CEL files   Susan G. Hilsenbeck
    • [BioC] plans for binary version of *.CEL files   Rafael A. Irizarry
  • [BioC] Memory Requirments   Robert Gentleman
• [BioC] maanova background correction   James MacDonald
  • [BioC] maanova background correction   Rafael A. Irizarry
    • [BioC] maanova background correction   Dave Waddell
      • [BioC] maanova background correction   Gordon Smyth
• [BioC] plans for binary version of *.CEL files   Kulp, David
  • [BioC] plans for binary version of *.CEL files   Rafael A. Irizarry
• [BioC] Memory Requirments   James MacDonald
• [BioC] com.braju.sma   kfbargad at lg.ehu.es
• [BioC] plans for binary version of *.CEL files   James MacDonald
• [BioC] plans for binary version of *.CEL files   Warnes, Gregory R
• [BioC] maanova background correction   kfbargad at lg.ehu.es
• [BioC] (no subject)   paciollasergio
• [BioC] Memory size   default
• [BioC] Memory size   James MacDonald
• [BioC] Re: location in chromosome   R.Heberto Ghezzo
  • [BioC] Re: location in chromosome   Vincent Carey 525-2265
• [BioC] Re: location in chromosome   Park, Richard
  • [BioC] Re: location in chromosome   Jeff Gentry
• Restatement: Was Re: [BioC] Memory Requirments   Michael Barnes
  • Restatement: Was Re: [BioC] Memory Requirments   Laurent Gautier
• [BioC] questions about MVA plot and loess N   Phguardiol at aol.com
  • [BioC] questions about MVA plot and loess N   Rafael A. Irizarry
• [BioC] ReadAffy error   Dick Beyer
  • [BioC] ReadAffy error   Rafael A. Irizarry
• Restatement: Was Re: [BioC] Memory Requirments   James MacDonald
• [BioC] memory limit increase   Tapan Mehta
  • [BioC] memory limit increase   Robert Gentleman
• [BioC] Re: rma background correction   johnston at pat.biochem.ucl.ac.uk
  • [BioC] Re: rma background correction   Rafael A. Irizarry
• [BioC] hgu133a cdf package   Phguardiol at aol.com
  • [BioC] hgu133a cdf package   Jeff Gentry
• [BioC] Spotted array analysis   Ron Ophir
  • [BioC] Spotted array analysis   Jean Yee Hwa Yang
• [BioC] Reading Expression from a write.exprs file   osman at mit.edu
  • [BioC] Reading Expression from a write.exprs file   Rafael A. Irizarry
• [BioC] Reading Expression from a write.exprs file   osman at mit.edu
  • [BioC] Reading Expression from a write.exprs file   Rafael A. Irizarry
• [BioC] mt.sample.label RGui: Rgui.exe - Application Error   Dick Beyer
  • [BioC] mt.sample.label RGui: Rgui.exe - Application Error   Vincent Carey 525-2265
    • [BioC] mt.sample.label RGui: Rgui.exe - Application Error   Dick Beyer
• [BioC] (no subject)   beckon.st90g at nctu.edu.tw
  • [BioC] (no subject)   Jean Yee Hwa Yang
• [BioC] LPEtest library   Raghu burri
  • [BioC] LPEtest library   Vincent Carey 525-2265
• [BioC] Warning on Data Entry and Failure on Normalization (marrayInput, m arrayNorm, & normalizeWithinArrays)   White, Charles E WRAIR-Wash DC
• [BioC] reviewers for book chapter   Kseefeld1 at aol.com
• [BioC] ps   Kseefeld1 at aol.com
• [BioC] Biocore response to Affymetrix data format changes   Vincent Carey 525-2265
  • [BioC] Biocore response to Affymetrix data format changes   Isaac Neuhaus
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] obtaining PM/MM data from the .CEL files   Stephen Nyangoma
• [BioC] obtaining PM/MM data from the .CEL files   James MacDonald
• [BioC] Re: Obtaining PM/MM data from .CEL files   Eric
  • [BioC] Re: Obtaining PM/MM data from .CEL files   Stephen Nyangoma
• [BioC] maanova rss for null model   Brendan Heavey
• [BioC] maanova rss for null model   James MacDonald
• [BioC] affy vs rma   Jingqin luo
  • [BioC] affy vs rma   Rafael A. Irizarry
• [BioC] FDR and filtering   Phguardiol at aol.com
• [BioC] Biocore response to Affymetrix data format changes   James MacDonald
• [BioC] Problem in obtaining differentially expressed genes from an unbalanced set of data   Fátima Núñez

Last message date: Mon Jun 30 23:07:03 MET 2003
Archived on: Tue Jul 1 04:06:33 MET 2003

• Messages sorted by: [ subject ] [ author ] [ date ]
• More info on this list...