November 2003 Archives by thread

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Starting: Sat Nov 1 00:36:27 MEST 2003
Ending: Sun Nov 30 22:17:09 MEST 2003
Messages: 256

• [BioC] Scanarray format problem   Mathieu Drapeau
  • [BioC] Scanarray format problem   Jean Yee Hwa Yang
• [BioC] help w/ bg.correct.gcrma   James MacDonald
• [BioC] help w/ bg.correct.gcrma   Zhijin Wu
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] error from library(affy)   Yasushi Okubo
• [BioC] BioC release 1.3   Josephine.Liang at uchsc.edu
• [BioC] question in read.exprSet and read.phenoData   Marcelo Luiz de Laia
  • [BioC] question in read.exprSet and read.phenoData   Marcelo Luiz de Laia
• [BioC] BioC release 1.3   Josephine.Liang at uchsc.edu
• [BioC] CHRLOC data   Robert Gentleman
• [BioC] Heatmap function   Mark Reimers
• [BioC] CDF package needed for Barley chip   U. Baumann
• [BioC] Heatmap function   Liaw, Andy
• [BioC] CDF package needed for Barley chip   James MacDonald
  • [BioC] CDF package needed for Barley chip   w.huber at dkfz-heidelberg.de
• [BioC] heatmap() column ordering   Dave Waddell
  • [BioC] heatmap() column ordering   Vincent Carey 525-2265
    • [BioC] heatmap() column ordering   Steffen Moeller
  • [BioC] heatmap() column ordering   Johannes Hüsing
• [BioC] RE: heatmap() column ordering   Dave Waddell
• [BioC] How package I use for verify differentialy expressed genes after Normalization with marrayNorm?   Marcelo Luiz de Laia
  • [BioC] How package I use for verify differentialy expressed genes after Normalization with marrayNorm?   Jean Yee Hwa Yang
    • [BioC] How package I use for verify differentialy expressed genes after Normalization with marrayNorm?   Marcelo Luiz de Laia
• [BioC] scatter plot   Liping Cheng
  • [BioC] scatter plot   Marcelo Luiz de Laia
• [BioC] CDF package needed for Barley chip   lshen
• [BioC] Problem reading in files with marrayInput   Richard Friedman
  • [BioC] Problem reading in files with marrayInput   Jean Yee Hwa Yang
    • [BioC] Problem reading in files with marrayInput   Richard Friedman
    • [BioC] Problem reading in files with marrayInput Ignore previous response   Richard Friedman
      • [BioC] Problem reading in files with marrayInput Ignore previous response   Jean Yee Hwa Yang
• [BioC] Problem reading in files with marrayInput   James MacDonald
• [BioC] Doubt and Problem(?) with analysis with marray tools   Marcelo Luiz de Laia
• [BioC] Doubt and Problem(?) with analysis with marray tools   Gordon Smyth
• [BioC] option rm.mask=TRUE in ReadAffy   t-kawai at hhc.eisai.co.jp
• [BioC] mageml   Cary Miller
  • [BioC] mageml   Vincent Carey 525-2265
    • [BioC] mageml   Cary Miller
      • [BioC] mageml   Vincent Carey 525-2265
• [BioC] GCRMA error   Stuart M. Chambers
  • [BioC] GCRMA error   Zhijin Wu
    • [BioC] GCRMA error   w.huber at dkfz-heidelberg.de
• [BioC] Label genes on MvA plot   Anthony Bosco
• [BioC] Software for clest?   Peter Baker (CMIS, St Lucia)
• [BioC] Label genes on MvA plot   James MacDonald
• [BioC] Re: read.GenePix() function   Hua Weng
  • [BioC] Re: read.GenePix() function   Jean Yee Hwa Yang
    • [BioC] Re: read.GenePix() function   Gordon Smyth
• [BioC] normalizing 133 a and b   Rob Dunne
• [BioC] Software for clest?   Sandrine Dudoit
• [BioC] unusual ratio   Anthony Bosco
• [BioC] Locate genes on M v A plot   Anthony Bosco
• [BioC] Stange tailing in a Volcano-plot   Valtteri Wirta
  • [BioC] Stange tailing in a Volcano-plot   Gordon Smyth
• [BioC] Re; MAGEML   Steffen Durinck
• [BioC] add gcrma to bgcorrect methods in rma   Anthony Bosco
  • [BioC] add gcrma to bgcorrect methods in rma   Ken Simpson
• [BioC] Re:MAGEML   sdurinck
• [BioC] limma toptable output   Dick Beyer
  • [BioC] limma toptable output   James Wettenhall
• [BioC] [limma] Design and contrast matrices question   Sean Davis
  • [BioC] [limma] Design and contrast matrices question   Gordon Smyth
• [BioC] Error message in MDiagnPlots1   Richard Friedman
  • [BioC] Error message in MDiagnPlots1   Jean Yee Hwa Yang
• [BioC] download page for all packages?   Cooper Bethea
  • [BioC] download page for all packages?   Robert Gentleman
    • [BioC] download page for all packages?   Cooper Bethea
• [BioC] normalizing 133 a and b   Mark Reimers
• [BioC] using marrayInput package with GenePix .gpr file - read.GenePix()   Lin, Michael W.
  • [BioC] using marrayInput package with GenePix .gpr file - read.GenePix()   Jean Yee Hwa Yang
• [BioC] PSB Extended WorkShop on Alternative Splicing   Wang, Hui
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] [limma] How do I set "spacing" in lmFit ???   Marcelo Luiz de Laia
  • [BioC] [limma] How do I set 'spacing' in lmFit ???   Gordon K Smyth
    • [BioC] [limma] How do I set 'spacing' in lmFit ???   Marcelo Luiz de Laia
      • [BioC] [limma] How do I set 'spacing' in lmFit ???   Gordon Smyth
• [BioC] Rdbi/RdbiPgSQL fixes   Markus Neteler
• [BioC] Clustering in R....   Marcus
  • [BioC] Clustering in R....   Sean Davis
• [BioC] Rdbi/RdbiPgSQL fixes   John Zhang
• [BioC] Problems reading in Imagene files   Edo Plantinga
  • [BioC] Problems reading in Imagene files   Gordon Smyth
• [BioC] Problem outputting normalized file   Richard Friedman
  • [BioC] Problem outputting normalized file   Jean Yee Hwa Yang
    • [BioC] Problem outputting normalized file   Richard Friedman
    • [BioC] Problem outputting normalized file   Jenny Drnevich
• [BioC] Problems reading in Imagene files   James MacDonald
• [BioC] Problem outputting normalized file   Jenny Drnevich
• [BioC] Re: [R] A co-occurrence matrix   Sean Davis
• [BioC] Limma   Kim Kulltima
  • [BioC] Limma   Gordon Smyth
• [BioC] More than one weight with marrayRaw class   Mike Schaffer
  • [BioC] More than one weight with marrayRaw class   Jean Yee Hwa Yang
  • [BioC] More than one weight with marrayRaw class   Gordon Smyth
• [BioC] Limma issues.   Marcus
  • [BioC] Limma issues.   Gordon Smyth
• [BioC] [marrayNorm] Is it possible to obtain normalized intensity values ?   Marcelo Luiz de Laia
  • [BioC] [marrayNorm] Is it possible to obtain normalized intensity values ?   Jean Yee Hwa Yang
    • [BioC] [marrayNorm] Is it possible to obtain normalized intensityvalues ?   Rob Tempelman
• [BioC] multtest problem   Josephine.Liang at uchsc.edu
• [BioC] Rdbi/RdbiPgSQL fixes   John Zhang
• [BioC] Probe Cell   s0uchi02
• [BioC] Probe Cell   James MacDonald
• [BioC] Rgraphviz build problems   Sean Davis
  • [BioC] Rgraphviz build problems   Kasper Daniel Hansen
    • [BioC] Rgraphviz build problems   Sean Davis
      • [BioC] Rgraphviz build problems   A.J. Rossini
• [BioC] Probe Cell   Park, Richard
• [BioC] Bioconductor   Robert Cribbie
• [BioC] Bioconductor   James MacDonald
• [BioC] Problems about Heatmap   Shih-Te Yang
• [BioC] very small fold change from RMA data   Qiang Li
• [BioC] Status of binary CEL file support   Ben Bolstad
  • [BioC] Status of binary CEL file support   William Kenworthy
• [BioC] (no subject)   Subramanian Karthikeyan
• [BioC] Status of binary CEL file support   Tan, MinHan
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] A question about multiple analysis   Marcelo Luiz de Laia
  • [BioC] A question about multiple analysis   Gordon Smyth
• [BioC] limma design matrix question   Marcelo Luiz de Laia
  • [BioC] limma design matrix question   Gordon Smyth
• [BioC] affy troubles   peter robinson
• [BioC] Annotating yeast ORFs with GO and KEGG   Shih-Te Yang
  • [BioC] Annotating yeast ORFs with GO and KEGG   Ken Simpson
• [BioC] problem loading ontoTools   Nicholas Lewin-Koh
• [BioC] Status of binary CEL file support   James MacDonald
• [BioC] (no subject)   Duhaime Johanne
• [BioC] inconsistent annotation between "getGO()" and "getGO()"   Shih-Te Yang
• [BioC] inconsistent annotation between "getGO()" and "getGO()"   John Zhang
• [BioC] singlearrayerrormodel   kim750 at ggbio.com
  • [BioC] singlearrayerrormodel   w.huber at dkfz-heidelberg.de
• [BioC] Difference between the analysis of cDNA, spotted oligo arrays and comparative genomics hybridization?   Yuk Fai Leung
  • [BioC] Difference between the analysis of cDNA, spotted oligo arrays and comparative genomics hybridization?   Jean Yee Hwa Yang
• [BioC] Difference between the analysis of cDNA, spotted oligo arrays and comparative genomics hybridization?   Gordon Smyth
• [BioC] segmentation fault with using normalize.quantiles(), affy library   Siew Leng TENG
• [BioC] re-built a GO package by using function "GOPkgBuilder"?   Shih-Te Yang
• [BioC] re-built a GO package by using function "GOPkgBuilder"?   John Zhang
• [BioC] cdf files   James MacDonald
• [BioC] RMA on affy package   Yang Tang
  • [BioC] RMA on affy package   Rafael A. Irizarry
• [BioC] combine two objects & adding/deleting arrays in an object   Yuk Fai Leung
  • [BioC] combine two objects & adding/deleting arrays in an object   Jean Yee Hwa Yang
• [BioC] cdf files   jamie zhou
  • [BioC] cdf files   Laurent Gautier
• [BioC] bioconductor   Roger Vallejo
  • [BioC] bioconductor   A.J. Rossini
• [BioC] Difference value from MAS from affy in R vs. MAS 5.0 Microarray suite   Luo, Wen
  • [BioC] Difference value from MAS from affy in R vs. MAS 5.0 Microarray suite   Rafael A. Irizarry
• [BioC] gcrma commands in expresso function   Anthony Bosco
• [BioC] OpenPBS   Fujito Atsuya
• [BioC] affy troubles   peter robinson
• [BioC] index between genes and pathways   Shih-Te Yang
  • [BioC] index between genes and pathways   Robert Gentleman
• [BioC] index between genes and pathways   John Zhang
• [BioC] directed graph with Rgraphviz   Laurent Gautier
• [BioC] bioconductor   Warnes, Gregory R
  • [BioC] bioconductor   A.J. Rossini
  • [BioC] bioconductor   w.huber at dkfz-heidelberg.de
• [BioC] bioconductor   Paul Grosu
• FW: [BioC] bioconductor   Warnes, Gregory R
• [BioC] Re: OpenPBS   Colin Smith
• [bioC] complete analysis > session from start to finish   Paul Grosu
  • [bioC] complete analysis > session from start to finish   Robert Gentleman
• [BioC] Cannot open compressed file   Simon, Richard (NIH/NCI)
  • [BioC] Cannot open compressed file   Robert Gentleman
    • [BioC] Cannot open compressed file   Jeff Gentry
• [bioC] complete analysis > session from start to finish   John Zhang
• [BioC] bioconductor   Gordon Smyth
• [BioC] Bioconductor Programmer's Reference   Jeff Gentry
• [bioC] complete analysis > session from start to finish   peter robinson
• [BioC] RNA digestion plots   Kevin Dawson
  • [BioC] RNA digestion plots   William Kenworthy
    • [BioC] RNA digestion plots   Lawrence Paul Petalidis
      • [BioC] RNA digestion plots   Francois Collin
• [BioC] bioconductor   Warnes, Gregory R
• [BioC] RNA digestion plots   James MacDonald
• [BioC] From Unigene IDs to PubMed abstracts   Lawrence-Paul Petalidis
• [BioC] From Unigene IDs to PubMed abstracts   John Zhang
  • [BioC] From Unigene IDs to PubMed abstracts   Robert Gentleman
• [BioC] From Unigene IDs to PubMed abstracts   John Zhang
• [BioC] RE: Bioconductor Digest, Vol 9, Issue 28   Yuk Fai Leung
  • [BioC] Manova nuances   Michael Benjamin
• [BioC] RNA digestion plots   Tan, MinHan
• [BioC] handling scanalyze output format   Vincent Carey 525-2265
• [BioC] affy packages on Linux doesn't get installed   juliab at stat.berkeley.edu
• [BioC] (no subject)   zhao luo
• [BioC] how to flag bad spots   zhao luo
• [BioC] Debian packages for BioConductor   A.J. Rossini
• [BioC] incorrect gene symbols in annotate   Anthony Bosco
• [BioC] Re: Manova nuances   Stephen P. Baker
• [BioC] Re: Manova nuances   Liaw, Andy
  • [BioC] Re: Manova nuances   Michael Benjamin
• [BioC] Limma error   Amin Momin
• [BioC] Limma error   James MacDonald
• [BioC] bioconductor   Yuk Fai Leung
• [BioC] how to display graphics on the web?   LIANHE SHAO
  • [BioC] how to display graphics on the web?   Ramon Diaz-Uriarte
• [BioC] incorrect gene symbols in annotate   John Zhang
  • [BioC] incorrect gene symbols in annotate   Robert Gentleman
• [BioC] how to display graphics on the web?   Warnes, Gregory R
• [BioC] combine two objects & adding/deleting arrays in an obj ect   Yuk Fai Leung
  • [BioC] combine two objects & adding/deleting arrays in an obj ect   Jean Yee Hwa Yang
• [BioC] Re: Manova nuances   Baker, Stephen
  • [BioC] Re: Manova nuances   Michael Benjamin
    • [BioC] Re: Manova nuances   Stephen P. Baker
      • [BioC] Re: Manova nuances   Michael Benjamin
      • [BioC] Re: Manova nuances   Stephen P. Baker
• [BioC] Re: how to display graphics on the web?   Colin Smith
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] (no subject)   christian.riedel at biologie.uni-ulm.de
• [BioC] Problems highlight control spots in MA plots   christian.riedel at biologie.uni-ulm.de
  • [BioC] Problems highlight control spots in MA plots   Jean Yee Hwa Yang
• [BioC] Re: maPlot and defining controls   Chris Bye
• [BioC] how to display graphics on the web?   michael watson (IAH-C)
• [BioC] webbioc configuration   Ron Ophir
• [BioC] Differences between spikein chips and rgu34a?   Andrew Harrison
• [BioC] Re: Manova nuances   Liaw, Andy
• [BioC] how to flag bad spots   Paul Grosu
• [BioC] Support for binary cel files   Ben Bolstad
• [BioC] Re: Manova nuances   Baker, Stephen
• [BioC] (no subject)   singaram muthu
  • [BioC] (no subject)   Jeff Gentry
  • [BioC] (no subject)   Vincent Carey 525-2265
• [BioC] Flags in marrayRaw   michael watson (IAH-C)
  • [BioC] Flags in marrayRaw   Jean Yee Hwa Yang
• [BioC] Re: webbioc configuration   Colin Smith
• [BioC] Affy analysis   Yuk Fai Leung
• [BioC] diff (Beginner's question)   Adaikalavan RAMASAMY
  • [BioC] genefilter   aedin culhane
• [BioC] Affymetrix Postdoctoral Opportunity   VanLieu, Connie
• [BioC] RNA digestion plots   peter robinson
• [BioC] diff (Beginner's question)   peter robinson
• [BioC] pca analysis/plotting in 3D   Anthony Bosco
  • [BioC] pca analysis/plotting in 3D   Natalie Thorne
    • [BioC] pca analysis/plotting in 3D   aedin culhane
• [BioC] gcrma   Christian.Stratowa at vie.boehringer-ingelheim.com
  • [BioC] Re: gcrma   Rafael A. Irizarry
• [BioC] RE: gcrma   Christian.Stratowa at vie.boehringer-ingelheim.com
• [BioC] display spots of multiple control status (maControls)   Foata,Francis,LAUSANNE,NRC/N&H
• [BioC] simple ANOVA   Roger Vallejo
• [BioC] Which platform is better?Windows or Linux?   marchiem at libero.it
  • [BioC] Which platform is better?Windows or Linux?   Jeff Gentry
• [BioC] Unknown cdf error while processing affy files   Tapan Mehta
• [BioC] simple ANOVA   James MacDonald
• [BioC] Unknown cdf error while processing affy files   James MacDonald
• [BioC] Unknown cdf error while processing affy files   Stephen Henderson
• [BioC] Workshop on Statistics in Functional Genomics 2004   Christina Kuenzli
• Fwd: Re: Fwd: Re: [BioC] Clustering in R....   Marcus
• [BioC] BioConductor beginner needing to annotate clones   Law, Annie
• [BioC] Workshop on Statistics in Functional Genomics 2004   Martin Maechler
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] Limma coerce error   utepandragon at tiscali.it
• [BioC] Estrogen Data   Bernd Holleczek
  • [BioC] Estrogen Data   Laurent Gautier
• [BioC] Help for make a dendrogram (philogenetic tree)   Marcelo Luiz de Laia

Last message date: Sun Nov 30 22:17:09 MEST 2003
Archived on: Mon Dec 1 15:44:53 MEST 2003

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