August 2003 Archives by date

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Starting: Fri Aug 1 08:56:47 MET 2003
Ending: Sun Aug 31 00:25:30 MET 2003
Messages: 249

• [BioC] RNA degradation (again)   Chris Paulse
• [BioC] help on Bioconductor installation   Man, Michael
• [BioC] Repost: marrayNorm 1.1.3 gets stuck   Rob Dunne
• [BioC] Re: Spelling mistakes and some questions re limma   Gordon Smyth
• [BioC] gcrma   Crispin Miller
• [BioC] how to convert expression set data into matrix data ?   Anne Sauve
• [BioC] Repost: marrayNorm 1.1.3 gets stuck   Gordon Smyth
• [BioC] Problem with hgu133a   Colin A. Smith
• [BioC] Affymetrix MAS5 Calls   Paul Boutros
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] marrayNorm - Getting Data Out   Jean Yee Hwa Yang
• [BioC] marrayNorm - Getting Data Out   James MacDonald
• [BioC] how to convert expression set data into matrix data ?   Jean Yee Hwa Yang
• [BioC] gcrma   Rafael A. Irizarry
• [BioC] how to convert expression set data into matrix data ?   Rafael A. Irizarry
• [BioC] Affymetrix MAS5 Calls   Rafael A. Irizarry
• [BioC] Re: how to convert expression set data into matrix data ?   Sylvia Merk
• [BioC] Loess and Lowess   James MacDonald
• [BioC] Problem with hgu133a   John Zhang
• [BioC] RNA degradation (Chris Paulse)   Vawter, Marquis
• [BioC] How to use subset in maNorm() function of marrayNorm   michael watson (IAH-C)
• [BioC] RNA degradation (Chris Paulse)   Chris Paulse
• [BioC] Loess and Lowess   Rafael A. Irizarry
• [BioC] Defining Weights in marrayNorm.   James MacDonald
• [BioC] Loess and Lowess   michael watson (IAH-C)
• [BioC] RNA degradation (Chris Paulse)   James MacDonald
• [BioC] RNA degradation (Chris Paulse)   Rafael A. Irizarry
• [BioC] Defining Weights in marrayNorm.   Josef Walker
• [BioC] Venn diagrams   Chris Paulse
• [BioC] marrayNorm - Getting Data Out   Jean Yee Hwa Yang
• [BioC] Defining Weights in marrayNorm.   James MacDonald
• [BioC] Defining Weights in marrayNorm.   michael watson (IAH-C)
• [BioC] Re: Bioconductor Digest, Vol 6, Issue   Leslie M. Cope
• [BioC] Defining Weights in marrayNorm.   Gordon Smyth
• [BioC] marrayNorm - Getting Data Out   michael watson (IAH-C)
• [BioC] Defining Weights in marrayNorm.   Josef Walker
• [BioC] gcrma   Chris Paulse
• [BioC] marrayNorm - Getting Data Out   michael watson (IAH-C)
• [BioC] Defining Weights in marrayNorm.   michael watson (IAH-C)
• [BioC] gcrma   Rafael A. Irizarry
• [BioC] package(graph)   Ivan Borozan
• [BioC] Defining Weights in marrayNorm.   James MacDonald
• [BioC] Defining Weights in marrayNorm.   Gordon Smyth
• [BioC] Defining Weights in marrayNorm.   Gordon Smyth
• [BioC] Defining Weights in marrayNorm.   Gordon Smyth
• [BioC] package(graph)   michael watson (IAH-C)
• [BioC] Venn diagrams   Gordon Smyth
• [BioC] package(graph)   Jeff Gentry
• [BioC] fixed   Chad Shaw
• [BioC] mgu74av2CHRLOC   John Zhang
• [BioC] Removing data already read in.... limma and marrayInput   michael watson (IAH-C)
• [BioC] Defining Weights in marrayNorm.   Gordon Smyth
• [BioC] Defining Weights in marrayNorm.   mai98ftu at studserv.uni-leipzig.de
• [BioC] Errors in loading "Rgraphiz"   Jeff Gentry
• [BioC] Estimates of RMA parameters   Antille,Nicolas,LAUSANNE,NRC-BAS
• [BioC] Errors in loading "Rgraphiz"   Shih-Te Yang
• [BioC] Removing data already read in.... limma and marrayInput   Gordon Smyth
• [BioC] Estimates of RMA parameters   Antille,Nicolas,LAUSANNE,NRC-BAS
• [BioC] Re: KEGG metadata   John Zhang
• [BioC] Affy : CDF problems   Girardot Fabrice
• [BioC] Affy : CDF problems   Ben Bolstad
• [BioC] Estimates of RMA parameters   Rafael A. Irizarry
• [BioC] Affy : CDF problems   Girardot Fabrice
• [BioC] Re: Design of Experiments   Gordon Smyth
• [BioC] gcrma question   Phguardiol at aol.com
• [BioC] Limma Documentation: normalization functions   Paul Boutros
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] Memory problem with RMA   Phguardiol at aol.com
• [BioC] Memory problem with RMA   James MacDonald
• [BioC] microarray normalization   Natalie Thorne
• [BioC] Limma Documentation: normalization functions   Paul Boutros
• [BioC] Limma Documentation: normalization functions   Gordon Smyth
• [BioC] Limma Documentation: normalization functions   Gordon Smyth
• [BioC] RMA question (weighted averages)   Chris Paulse
• [BioC] asymmetry in up and down regulation   Chris Paulse
• [BioC] (no subject)   QIAN_HUI-RONG at lilly.com
• [BioC] asymmetry in up and down regulation   Rafael A. Irizarry
• [BioC] asymmetry in up and down regulation   Ben Bolstad
• [BioC] p-value adjustment when two or more genes are compared at same time   Jason Liao
• [BioC] installatioin problem   Jin, Ying
• [BioC] how is cbind meant to work?   Rob Dunne
• [BioC] installatioin problem   Jeff Gentry
• [BioC] gcrma   Rafael A. Irizarry
• [BioC] Microarray t-test and ANOVA   michael watson (IAH-C)
• [BioC] problem downloading cdf package   Toby Lieber
• [BioC] Which is the the Graphviz libraries for WinXP?   ying chen
• [BioC] Which is the the Graphviz libraries for WinXP?   Jeff Gentry
• [BioC] how is cbind meant to work?   Marcus Davy
• [BioC] proteomics data analysis   Martin Olivier
• [BioC] mask files   Gunter Weiss
• [BioC] R and Bioconductor training [forwarded message]   Martin Maechler
• [BioC] Can not plot only one chip at the time...   James MacDonald
• [BioC] Can not plot only one chip at the time...   Rafael A. Irizarry
• [BioC] Defining Weights in marrayNorm.   michael watson (IAH-C)
• [BioC] heatmap{mva}   Ivan Borozan
• [BioC] Defining Weights in marrayNorm.   michael watson (IAH-C)
• [BioC] Can not plot only one chip at the time...   Anna Gustafsson
• [BioC] heatmap{mva}   Martin Maechler
• [BioC] Using read.maimages() with Imagene output files.   Luke Whitaker
• [BioC] connection leak in getBioC or reposTools   Thomas Lumley
• [BioC] Using read.maimages() with Imagene output files.   Gordon Smyth
• [BioC] Format problems   Claire Wilson
• [BioC] Plotting expression statistic by chromosomal position   Adaikalavan Ramasamy
• [BioC] Re: ebayes on one array   Gordon Smyth
• [BioC] Using read.maimages() with Imagene output files.   Gordon Smyth
• [BioC] Format problems   Claire Wilson
• [BioC] tuning signals in image() plots?   Anna Gustafsson
• [BioC] RE: mva.pairs   Stephen Henderson
• [BioC] RE: mva.pairs   Stephen Henderson
• [BioC] tuning signals in image() plots? (fwd)   w.huber at dkfz-heidelberg.de
• [BioC] (no subject)   Anna Gustafsson
• [BioC] (no subject)   w.huber at dkfz-heidelberg.de
• [BioC] Newbie!   Marcus
• [BioC] Format problems   Gordon Smyth
• [BioC] Using read.maimages() with Imagene output files.   Gordon Smyth
• [BioC] Newbie!   Jean Yee Hwa Yang
• [BioC] How to plot the edge with number in Rgraphviz?   Jeff Gentry
• [BioC] How to plot the edge with number in Rgraphviz?   Shih-Te Yang
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] MVA heatmap() ignoring main   Dave Waddell
• [BioC] GCRMA v 0.4.0   Akil Abid Merchant
• [BioC] GCRMA v 0.4.0   Jeff Gentry
• [BioC] normalization in limma   cxd55 at cwru.edu
• [BioC] Annotation package for HG-Focus required   Wei, Wenbin
• [BioC] MVA heatmap() ignoring main   michael watson (IAH-C)
• [BioC] NORMALIZATION OF AFFYMETRIX CHIPS DATA   Rafael A. Irizarry
• [BioC] NORMALIZATION OF AFFYMETRIX CHIPS DATA   Rafael A. Irizarry
• [BioC] NORMALIZATION.   Stephen Nyangoma
• [BioC] NORMALIZATION OF AFFYMETRIX CHIPS DATA   Stephen Nyangoma
• [BioC] NORMALIZATION OF AFFYMETRIX CHIPS DATA   Stephen Nyangoma
• [BioC] NORMALIZATION OF AFFYMETRIX CHIPS DATA   Stephen Nyangoma
• [BioC] NORMALIZATION OF AFFYMETRIX CHIPS DATA   Stephen Nyangoma
• [BioC] Installation of ath1121501cdf   Justin Borevitz
• [BioC] Installation of ath1121501cdf   James MacDonald
• [BioC] Defining Weights in marrayNorm.   michael watson (IAH-C)
• [BioC] normalization in limma   Gordon Smyth
• [BioC] normalization in limma   Gordon Smyth
• [BioC] Annotation package for HG-Focus required   Oosting, J. (PATH)
• [BioC] Installation of ath1121501cdf   Jeff Gentry
• [BioC] Monkey & Affymetrix human chip : HU133 or HU95av2 ?   Huo Li
• [BioC] Installation of ath1121501cdf   Jeff Gentry
• [BioC] Multtest package   Claire Wilson
• [BioC] Installation of ath1121501cdf   Delphine Fleury
• [BioC] Multtest package   Ramon Diaz-Uriarte
• [BioC] Defining Weights in marrayNorm.   Marcus Davy
• [BioC] Some question reg golubTrain data   dibakar ray
• [BioC] Monkey & Affymetrix human chip : HU133 or HU95av2 ?   laurent buffat
• [BioC] 404 for GenePlotter win32 install file   paul.boutros at utoronto.ca
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Ramon Diaz-Uriarte
• [BioC] Post rma analysis   Rafael A. Irizarry
• [BioC] Installation of ath1121501cdf   Delphine Fleury
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Gordon Smyth
• [BioC] mean of individual rows for subsets of columns in an ExprSet   Vincent Carey 525-2265
• [BioC] Post rma analysis   Adaikalavan Ramasamy
• [BioC] Post-justRMA "quality control"   Michael Barnes
• [BioC] mean of individual rows for subsets of columns in an ExprSet   Vincent Carey 525-2265
• [BioC] Post-justRMA "quality control"   James MacDonald
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Gordon Smyth
• [BioC] Defining Weights in marrayNorm.   Yuk Fai Leung
• [BioC] Bug in function i2xy   w.huber at dkfz-heidelberg.de
• [BioC] mean of individual rows for subsets of columns in an ExprSet   Claire Wilson
• [BioC] arrayVision   Isaac Mehl
• [BioC] arrayVision   Jean Yee Hwa Yang
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Ramon Diaz-Uriarte
• [BioC] mean of individual rows for subsets of columns in an ExprSet   Douglas Bates
• [BioC] mean of individual rows for subsets of columns in an ExprSet   Anna Gustafsson
• [BioC] ....and the coefficient of variation...   Anna Gustafsson
• [BioC] Post-justRMA "quality control"   Claire Wilson
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Ramon Diaz-Uriarte
• [BioC] Bug in function i2xy   Laurent Gautier
• [BioC] ERRORS IN LIWONG EXPRESSION VALUES.   James MacDonald
• [BioC] limma documentation   Wenqiong Chen
• [BioC] mean of individual rows for subsets of columns in an ExprSet   Johannes Freudenberg
• [BioC] ERRORS IN LIWONG EXPRESSION VALUES.   Stephen Nyangoma
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Gordon Smyth
• [BioC] Simple questions about p values adjustment in limma/multt est   Yuk Fai Leung
• [BioC] ERRORS IN LIWONG EXPRESSION VALUES.   Stephen Nyangoma
• [BioC] lm.series error   Delphine Fleury
• [BioC] dye swaps of technical replicates and variable numbers of replicate spots   Ramon Diaz-Uriarte
• [BioC] lm.series error   Ramon Diaz-Uriarte
• [BioC] limma: normalizeWithinArrays using composite method   paul.boutros at utoronto.ca
• [BioC] lm.series error   Gordon Smyth
• [BioC] Simple questions about p values adjustment in limma/multt est   Ramon Diaz-Uriarte
• [BioC] Altix IA-64 chip   Isaac Neuhaus
• [BioC] Post-justRMA "quality control"   Michael Barnes
• [BioC] RNA degradation   James MacDonald
• [BioC] Bug in gcrma_0.4.0?   James MacDonald
• [BioC] Altix IA-64 chip   James MacDonald
• [BioC] limma: normalizeWithinArrays using composite method   Gordon Smyth
• [BioC] Re: Bioconductor Digest, Vol 6, Issue 33   Leslie Cope
• [BioC] Genechip experiment in limma   Gordon Smyth
• [BioC] ERRORS IN LIWONG EXPRESSION VALUES.   Rafael A. Irizarry
• [BioC] limma documentation   Gordon Smyth
• [BioC] RNA degradation   Delphine Fleury
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] pack (mainly) for E.coli genome (and possibly other circular genomic entities)   Laurent Gautier
• RES: [BioC] Genechip experiment in limma   Gordon K Smyth
• [BioC] Please ask questions through the list   Gordon K Smyth
• [BioC] rae230a/b data packages buggy?   Claudio Lottaz
• [BioC] rae230a/b data packages buggy?   Reinhold Koch
• [BioC] rae230a/b data packages buggy?   John Zhang
• [BioC] rae230a/b data packages buggy?   John Zhang
• [BioC] rae230a/b data packages buggy?   John Zhang
• [BioC] Installation error   Marco Crescenzi
• [BioC] functional clustering question   Phguardiol at aol.com
• [BioC] Re: Designing matrix with limma   Gordon Smyth
• [BioC] Re: Genechip experiment in limma   Gordon Smyth
• [BioC] ArrayVision and limma   Isaac Mehl
• [BioC] RMA hist   Rafael A. Irizarry
• [BioC] loess normalisations within limma and marrayNorm disagree slightl y   michael watson (IAH-C)
• [BioC] RMA hist   Delphine Fleury
• [BioC] Minimum expression threshold?   Bob
• [BioC] ArrayVision and limma   Gordon Smyth
• [BioC] ArrayVision and limma   Gordon Smyth
• [BioC] loess normalisations within limma and marrayNorm disagree slightl y   Gordon Smyth
• [BioC] Filtering Affymetrix data. (Newbie)   James MacDonald
• [BioC] Filtering Affymetrix data. (Newbie)   Marcus
• [BioC] Filtering Affymetrix data. (Newbie)   Rafael A. Irizarry
• [BioC] New Affy SpikeIn Data Set & Affy   James MacDonald
• [BioC] RMA question   Phguardiol at aol.com
• [BioC] New Affy SpikeIn Data Set & Affy   Rafael A. Irizarry
• [BioC] RMA question   Rafael A. Irizarry
• [BioC] affy package pm ids and position on mRNA   Keith Vass
• [BioC] New Affy SpikeIn Data Set & Affy   Crispin Miller
• [BioC] Missing method in graph   Vincent Carey 525-2265
• [BioC] New Affy SpikeIn Data Set & Affy   laurent buffat
• [BioC] Missing method in graph   Nicholas Lewin-Koh
• [BioC] RMA question + GCRMA question   Phguardiol at aol.com
• [BioC] New Affy SpikeIn Data Set & Affy   laurent buffat
• [BioC] RMA question + GCRMA question   Rafael A. Irizarry
• [BioC] RMA question   Laurent Gautier
• [BioC] (no subject)   James MacDonald
• [BioC] marrayInfo linked to marrayRaw   michael watson (IAH-C)
• [BioC] marrayInfo linked to marrayRaw   Jean Yee Hwa Yang
• [BioC] (no subject)   Marcus
• [BioC] affy package pm ids and position on mRNA   Rafael A. Irizarry
• [BioC] (no subject)   Ben Bolstad
• [BioC] limma now supports ArrayVision   Gordon K Smyth
• [BioC] error while running RMA   Lang Chen
• [BioC] bug in hexbin and fix.   Thomas Lumley
• [BioC] affy package pm ids and position on mRNA   Laurent Gautier
• [BioC] marrayInfo linked to marrayRaw   bioconductor-bounces at stat.math.ethz.ch
• [BioC] Data Packages V. 1.3.1   Jeff Gentry
• [BioC] mu11ksubb cdf package   Marta Milo
• [BioC] error while running RMA   Ben Bolstad
• [BioC] Minimum expression threshold?   Rafael A. Irizarry
• [BioC] Recent changes to Bioconductor packages   madman at jimmy.harvard.edu
• [BioC] Affymetrix errormodel?   Djork Clevert
• [BioC] (no subject)   bioconductor-bounces at stat.math.ethz.ch

Last message date: Sun Aug 31 00:25:30 MET 2003
Archived on: Wed Sep 3 23:27:06 MET 2003

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