August 2005 Archives by thread

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Starting: Mon Aug 1 07:23:34 CEST 2005
Ending: Wed Aug 31 21:32:08 CEST 2005
Messages: 243

• [BioC] Spikein Data Package Win32 download problem still present   Seth Falcon
• [BioC] normalizing incomplete arrays [was: limma error message]   Jianping Jin
• [BioC] LimmaGUI Error   Brooke-Powell, Elizabeth
  • [BioC] LimmaGUI Error   Gregor Siegler
• [BioC] LimmaGUI Error   jon butchar
• [BioC] normalizing incomplete arrays [was: limma errormessage]   Marcus Davy
• [BioC] BlueFuse in limmaGUI [was LimmaGUI Error]   Gordon Smyth
  • [BioC] BlueFuse in limmaGUI [was LimmaGUI Error]   Brooke-Powell, Elizabeth
    • [BioC] BlueFuse in limmaGUI [was LimmaGUI Error]   Gordon Smyth
      • [BioC] BlueFuse in limmaGUI [was LimmaGUI Error]   Brooke-Powell, Elizabeth
      • [BioC] BlueFuse in limmaGUI [was LimmaGUI Error]   Gordon Smyth
• [BioC] problem with hgu133a // GOstats // BioC-R2.1.1   Katleen De Preter
  • [BioC] problem with hgu133a // GOstats // BioC-R2.1.1   Wolfgang Huber
  • [BioC] problem with hgu133a // GOstats // BioC-R2.1.1   Vincent Carey 525-2265
• [BioC] problem with hgu133a // GOstats // BioC-R2.1.1   John Zhang
• [BioC] normalizing incomplete arrays [was: limma errormessage]   Jianping Jin
• [BioC] LimmaGUI Error   Brooke-Powell, Elizabeth
• [BioC] problem with hgu133a // GOstats // BioC-R2.1.1   John Zhang
• [BioC] opposite signs in limma   Jihoon Kim
  • [BioC] opposite signs in limma   Gordon Smyth
• [BioC] limma: positive correlation for dyeswap pairs   Naomi Altman
• [BioC] Fwd: limma: positive correlation for dyeswap pairs   Naomi Altman
• [BioC] loop design question   scholz at Ag.arizona.edu
• [BioC] affyPLM query   Caroline Johnston
• [BioC] AffyPLM   Caroline Johnston
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] BioC problem: cannot install moe430a   stefano iacus
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] problem with installing Rgraphviz   Seth Falcon
  • [BioC] problem with installing Rgraphviz   Jeff Gentry
• [BioC] BioC problem: cannot install moe430a   Seth Falcon
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] ABPkgBuilder Error;   John Zhang
• [BioC] affycompPlot   Mohammad Esad-Djou
  • [BioC] affycompPlot   Zhijin (Jean) Wu
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] ABPkgBuilder Error;   John Zhang
• [BioC] affycompPlot   Mohammad Esad-Djou
• [BioC] image processing -fixed xircle vs. adaptive   Sheetal Bhan
• [BioC] limma Function   Jianping Jin
• [BioC] Job: Computational Biology Group at FHCRC is hiring   Seth Falcon
• [BioC] limma: positive correlation for dyeswap pairs   Naomi Altman
  • [BioC] limma: positive correlation for dyeswap pairs   Naomi Altman
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] ABPkgBuilder Error;   John Zhang
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] ABPkgBuilder Error;   John Zhang
• [BioC] ABPkgBuilder Error;   Barry Henderson
• [BioC] cdfName/annotation variants for hgu133a?   peter.warren at verizon.net
  • [BioC] cdfName/annotation variants for hgu133a?   James W. MacDonald
• [BioC] Technical Support Engineer for R/S and Bioconductor   Sue Turner
• [BioC] Technical Support Engineer for R/S and Bioconductor   Sue Turner
• [BioC] loop design question   Gordon K Smyth
• [BioC] Limma using all probes on Affy chip   davidl at unr.nevada.edu
• [BioC] loop design question   Matjaž Hren
• [BioC] loop design question   Ron Ophir
• [BioC] GFF3 format from ucsc   Sean Davis
• [BioC] Limma using all probes on Affy chip   Gordon K Smyth
  • [BioC] Limma using all probes on Affy chip   Suresh Gopalan
• [BioC] loop design question   Gordon K Smyth
• [BioC] affycomp, Variance across replicates plot,   Mohammad Esad-Djou
• [BioC] Probe indices for the Drosophila2 Affy chip   Eric Blanc
  • [BioC] Probe indices for the Drosophila2 Affy chip   James W. MacDonald
    • [BioC] Probe indices for the Drosophila2 Affy chip   eblanc at ebi.ac.uk
      • [BioC] Probe indices for the Drosophila2 Affy chip   James W. MacDonald
• [BioC] metadata - annotation package changes   Maria Stalteri
• [BioC] affycomp, tableAll for dchip, Not multi-array ...   Mohammad Esad-Djou
• [BioC] Preprocessing affymetrix data   Ingunn Berget
  • [BioC] Preprocessing affymetrix data   Emmanuel Levy
  • [BioC] Preprocessing affymetrix data   Winnie Wefelmeyer
• [BioC] metadata - annotation package changes   John Zhang
  • [BioC] metadata - annotation package changes   Maria Stalteri
• [BioC] metadata - annotation package changes   John Zhang
  • [BioC] getBioC() -- keeps grabbing everything   Richard Finney
    • [BioC] getBioC() -- keeps grabbing everything   Seth Falcon
  • [BioC] metadata - annotation package changes   Maria Stalteri
• [BioC] biomaRt question   Jamain, Adrien J
  • [BioC] biomaRt question   Sean Davis
• [BioC] problem with expresso() in affy package   Chunrong Dong
  • [BioC] problem with expresso() in affy package   James W. MacDonald
• [BioC] biomaRt question   sdurinck at ebi.ac.uk
• [BioC] adding annotation to exprSet   Andreas Zankl
• [BioC] adding annotation to exprSet   Andreas Zankl
  • [BioC] adding annotation to exprSet   James W. MacDonald
• [BioC] moe430a and moe430av2 normalisation   Margaret Gardiner-Garden
• [BioC] metadata - annotation package changes   John Zhang
  • [BioC] metadata - annotation package changes   Maria Stalteri
• [BioC] metadata - annotation package changes   John Zhang
  • [BioC] metadata - annotation package changes   Maria Stalteri
• [BioC] error on metadata page   Adam
  • [BioC] error on metadata page   Seth Falcon
• [BioC] installing Bioconductor on Mac OS tiger   Kay Schneitz
• [BioC] Mapping CDF from different array platforms   Rifat Hamoudi
  • [BioC] Mapping CDF from different array platforms   Sean Davis
• [BioC] adjusted p-values for large number of genes...   Lourdes Peña Castillo
  • [BioC] adjusted p-values for large number of genes...   James W. MacDonald
• [BioC] Spurious results with justMAS   andrew.w.wooster at gsk.com
• [BioC] Error in bioClite instructions   Peter.Robinson at t-online.de
  • [BioC] Error in bioClite instructions   Benilton Carvalho
• [BioC] finding affy_ID from genesymbol   Andreas Zankl
  • [BioC] finding affy_ID from genesymbol   Steffen Durinck
• [BioC] GCRMA, identical normalized values from 3 replicates   fhong at salk.edu
  • [BioC] GCRMA, identical normalized values from 3 replicates   Zhijin (Jean) Wu
  • [BioC] GCRMA, identical normalized values from 3 replicates   Adaikalavan Ramasamy
• [BioC] affy package 'Error in computeExprSet'   Yihuan Xu
  • [BioC] affy package 'Error in computeExprSet'   Seth Falcon
• [BioC] [JOB] Biostatistics/Analysis   Furge, Kyle
• [BioC] biomaRt/RMySQL installation help   Jane Fridlyand
• [BioC] makecdfenv makePlatformDesign bigendian   Tim Strom
  • [BioC] makecdfenv makePlatformDesign bigendian   Seth Falcon
• [BioC] biomaRt/RMySQL installation help   Narendra Kaushik
  • [BioC] biomaRt/RMySQL installation help   Seth Falcon
• [BioC] biomaRt/RMySQL installation help   Ye, Bin
• [BioC] biomaRt/RMySQL installation help   Ye, Bin
  • [BioC] General questions about RMA and Mas5, etc   yihong yao
• [BioC] error message from GLAD   Irene Li
  • [BioC] error message from GLAD   Philippe Hupé
• [BioC] using codelink data on limma   Bert Wong
• [BioC] packages for homzygosity mapping with 100k SNP Chip ?   Andreas Zankl
• [BioC] goTools data formatting   adlai burman
• [BioC] How do I install custom made CDF in Bioconductor   Ruppert Valentino
  • [BioC] How do I install custom made CDF in Bioconductor   James W. MacDonald
• [BioC] bioconductor.org emergency downtime   Seth Falcon
  • [BioC] bioconductor.org emergency downtime   Seth Falcon
    • [BioC] bioconductor.org emergency downtime   Seth Falcon
• [BioC] limma and block effect   Wenbin Liu
• [BioC] GFF3 format from ucsc   Cook, Malcolm
• [BioC] goTools data formatting   Paquet, Agnes
  • [BioC] goTools data formatting   adlai burman
• [BioC] read data from Imagene   ABRAHAM NAHMANY
• [BioC] GFF3 format from ucsc   Sean Davis
• [BioC] biomaRt zebrafish   Georg Otto
• [BioC] Error when using limma contrasts.fit   Adam Witney
• [BioC] heatmap and hcluster from limma out put object   Marcelo Luiz de Laia
• [BioC] Categorical data in bioconductor   Xiyan Lon
  • [BioC] Categorical data in bioconductor   Sean Davis
• [BioC] How to split one array into 2 virtual ones   Sarwar, Rizwan
• [BioC] lowess, quantreg, waveslim   Sorani, Marco
• [BioC] biomaRt zebrafish   sdurinck at ebi.ac.uk
• [BioC] ABPkgBuilder Error; Again   Barry Henderson
• [BioC] ABPkgBuilder Error; Again: Solved   Barry Henderson
  • [BioC] ABPkgBuilder Error; Again: Solved   Seth Falcon
• [BioC] ABPkgBuilder Error; Again: Solved   Barry Henderson
  • [BioC] ABPkgBuilder Error; Again: Solved   Seth Falcon
    • [BioC] ABPkgBuilder Error; Again: Solved   Ting-Yuan Liu (FHCRC)
• [BioC] PCA plots   Jakub Orzechowski Westholm
  • [BioC] PCA plots   Adaikalavan Ramasamy
• [BioC] duplicate genes in Affy arrays   jsv at stat.ohio-state.edu
  • [BioC] duplicate genes in Affy arrays   Suresh Gopalan
• [BioC] Siggenes: How to deal with one treatment - five controls problem?   Paolo Sirabella
• [BioC] standard errors for expression intensities   Devarajan, Karthik
  • [BioC] standard errors for expression intensities   James W. MacDonald
• [BioC] arrayQuality Issue.   Richard Strong
• [BioC] (x,y) coordinates and probe intensity   Ashley Lin
  • [BioC] (x,y) coordinates and probe intensity   James W. MacDonald
• [BioC] arrayQuality Issue.   Paquet, Agnes
• [BioC] Using the AnnBuilder package for other organisms   Bornman, Daniel M
• [BioC] Using AnnBuilder for other organisms   Bornman, Daniel M
• [BioC] Fw: duplicate genes in Affy arrays   Suresh Gopalan
• [BioC] Analysing a timecourse/loop experiment without replication with limma   Claus Mayer
  • [BioC] Analysing a timecourse/loop experiment without replication with limma   Naomi Altman
• [BioC] A large -omics data set   Simon Lin
• [BioC] limma and block effect   Gordon Smyth
• [BioC] read data from Imagene   Gordon Smyth
• [BioC] heatmap and hcluster from limma out put object   Gordon Smyth
• [BioC] AnnBuilder for other organisms   Bornman, Daniel M
• [BioC] kooperberg syntax   scholz at Ag.arizona.edu
• [BioC] How do I install custom made CDF in Bioconductor   Ruppert Valentino
• [BioC] Problem with write.fit in limma package   Sabine Trochim
• [BioC] Matchprobe package   Nathan Salomonis
• [BioC] RMA vs. MAS5   Devarajan, Karthik
  • [BioC] RMA vs. MAS5   Naomi Altman
• [BioC] GCOS Algorithm?   davidl at unr.nevada.edu
• [BioC] Removing batch effects   Aedin
• [BioC] spottypes file problem   scholz at Ag.arizona.edu
• [BioC] Removing batch effects   Arne.Muller at sanofi-aventis.com
• [BioC] match probes: probesets with too few matches   Margaret Gardiner-Garden
  • [BioC] match probes: probesets with too few matches   Wolfgang Huber
• [BioC] Collation of differentially expressed genes in Limma   Donald Dunbar
• [BioC] Problem with write.fit in limma package   Gordon Smyth
• [BioC] How do I install custom made CDF in Bioconductor   James MacDonald
• [BioC] File permission failures when building Bioconductor on AMD64/Opteron   Michael Redmond
  • [BioC] File permission failures when building Bioconductor on AMD64/Opteron   Michael Redmond
• [BioC] Problem with write.fit in limma package   Gordon Smyth
  • [BioC] Problem with write.fit in limma package   Sabine Trochim
• [BioC] Rdbi.PgSQL segmentation faults   Ido M. Tamir
• [BioC] studentship till January 2007   Ramon Diaz-Uriarte
• [BioC] Call SAS from R   Shin, David
  • [BioC] [R] Call SAS from R   Don MacQueen
• [BioC] How you can help Bioconductor improve   Seth Falcon
• [BioC] New package deadline for the 1.7 release: Sept 6   Seth Falcon
• [BioC] [R] Call SAS from R   Shin, David
  • [BioC] [R] Call SAS from R   David Forrest
• [BioC] [R] Call SAS from R   Prof Brian Ripley
• [BioC] kooperberg syntax   michael watson (IAH-C)
• [BioC] time course analysis   Marta Agudo
• [BioC] Problems with justGCRMA: Error in bg.adjust.fullmodel   Jordi Altirriba Gutiérrez
  • [BioC] Problems with justGCRMA: Error in bg.adjust.fullmodel   James W. MacDonald
• [BioC] About Hopach package   z3076426 at student.unsw.edu.au
• [BioC] Do i need to do scaling normalization to the data i download form NCBI GEO?   Xiao Shi
• [BioC] Do i need to do scaling normalization to the data i downloadform NCBI GEO?   Arne.Muller at sanofi-aventis.com
• [BioC] Need help to creat AffyBatch object   Lizhe Xu
  • [BioC] Need help to creat AffyBatch object   Kasper Daniel Hansen
• [BioC] Display error - GoCluster user manual   Lourdes Peña Castillo
  • [BioC] Display error - GoCluster user manual   Seth Falcon
• [BioC] update packages problem   Ivan Baxter
• [BioC] affy and simpleaffy error   Narendra Kaushik
• [BioC] Significant dye bias using limma   Naomi Altman
• [BioC] Siggenes: How to deal with one treatment - five controls problem?   Norman Pavelka
• [BioC] multi class SAM or Two class(unpaired)   Xiao Shi
• [BioC] ReadAffy(widget=TRUE) on OSX 10.4   Jeffrey Habig
• [BioC] ReadAffy(widget=TRUE) on OSX 10.4   Marcus Davy
• [BioC] accession vs species   Dr_Gyorffy_Balazs
  • [BioC] accession vs species   Steffen Durinck
• [BioC] gcRMA and normalization   claudio.is at libero.it
  • [BioC] gcRMA and normalization   Zhijin (Jean) Wu
  • [BioC] gcRMA and normalization   Ariel Chernomoretz
• [BioC] incoherence with LPE   Sabrina Carpentier
• [BioC] Building a package: R CMD check problems   Raffaele Calogero
  • [BioC] Building a package: R CMD check problems   Kasper Daniel Hansen
• [BioC] problem with GOcluster   Kimpel, Mark William
  • [BioC] problem with GOcluster   Gunnar Wrobel
• [BioC] LPE method based on RMA vs. MAS5   Devarajan, Karthik
• [BioC] adding a package Vignette to the Vignettes menu when loading package   Ana Conesa
  • [BioC] adding a package Vignette to the Vignettes menu when loading package   Robert Gentleman
• [BioC] Instalation of Bioconductor package   Shipra Agarwal
  • [BioC] Instalation of Bioconductor package   Seth Falcon
• [BioC] [SAM] Error in mat.sig[, "d.value"] : incorrect number of dimensions   Heike Pospisil
  • [BioC] [SAM] Error in mat.sig[, "d.value"] : incorrect number of dimensions   Seth Falcon
  • [BioC] [SAM] Error in mat.sig[, "d.value"] : incorrect number of dimensions   Sabrina Carpentier
    • [BioC] [SAM] Error in mat.sig[, "d.value"] : incorrect number of dimensions   Holger Schwender
• [BioC] Rserve seem to be working but it doesn't   joelarrais
  • [BioC] Rserve seem to be working but it doesn't   Seth Falcon
• [BioC] FW: Rserve seem to be working but it doesn't   joelarrais
• [BioC] affymetrix latin square   Jennifer Lai
• [BioC] [R] Bioconductor and R-devel   Seth Falcon
• [BioC] [R] Bioconductor and R-devel   Seth Falcon
• [BioC] creating cdf environment   Carol Hannam
• [BioC] Several questions goCluster and GOstats...   Lourdes Peña Castillo
  • [BioC] Several questions goCluster and GOstats...   Gunnar Wrobel
• [BioC] creating cdf environment Correction   Carol Hannam
  • [BioC] creating cdf environment Correction   Benilton Carvalho
  • [BioC] creating cdf environment Correction   James W. MacDonald

Last message date: Wed Aug 31 21:32:08 CEST 2005
Archived on: Tue Sep 13 19:19:28 CEST 2005

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