May 2009 Archives by author

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Starting: Fri May 1 00:23:03 CEST 2009
Ending: Sun May 31 23:23:13 CEST 2009
Messages: 475

• [BioC] smida won't load in R 2.9   john seers (IFR)
• [BioC] Upgrading R   john seers (IFR)
• [BioC] Upgrading R   john seers (IFR)
• [BioC] Bioconductor Digest, Vol 75, Issue 12   john seers (IFR)
• [BioC] extracting specific columns from a table   ALok
• [BioC] installation of Rgraphviz   Patrick Aboyoun
• [BioC] demo code for R package   Patrick Aboyoun
• [BioC] flowClust installation on OS X   Patrick Aboyoun
• [BioC] Rgraphviz: .onLoad error   Patrick Aboyoun
• [BioC] PWM matching using matchPWM in Biostrings   Patrick Aboyoun
• [BioC] R2.10 and BioC 2.5 where to report bugs?   Patrick Aboyoun
• [BioC] biomaRt - current devel version of biomaRt+RCurl don't work   Patrick Aboyoun
• [BioC] IQR implementation in varFiler and nsFilter (genefilter package)   Patrick Aboyoun
• [BioC] problem with biocLite("Biobase") -- results in looping of download   Cei Abreu-Goodger
• [BioC] beadarray: outliers but not summary in log2-scale?   Cei Abreu-Goodger
• [BioC] beadarray: outliers but not summary in log2-scale?   Cei Abreu-Goodger
• [BioC] problem with pdInfoBuilder   Elsa Aguera
• [BioC] random positioning of duplicate spots   Naomi Altman
• [BioC] Agilent 2 colour spike-in controls   Naomi Altman
• [BioC] One-color spotted microarrays analysis   Naomi Altman
• [BioC] Limma analyse factorial data with two-color arrays   Naomi Altman
• [BioC] One-color spotted microarrays analysis   Naomi Altman
• [BioC] Error in ebayes: No residual degrees of freedom in linear model fits   Naomi Altman
• [BioC] Limma analyse factorial data with two-color arrays   Naomi Altman
• [BioC] HilbertVis troubles   Simon Anders
• [BioC] past bioc releases   Simon Anders
• [BioC] You have one new message   Commonwealth Bank of Australia
• [BioC] You have one new message   Commonwealth Bank of Australia
• [BioC] Congratulations!   Commonwealth Bank of Australia
• [BioC] Congratulations!   Commonwealth Bank of Australia
• [BioC] Congratulations!   Commonwealth Bank of Australia
• [BioC] limma design, 3 biological reps (two with a tech rep, one without)   Ryan Basom
• [BioC] no applicable method for "LD"   Basu, Analabha
• [BioC] no applicable method for "LD"   Basu, Analabha
• [BioC] One-color spotted microarrays analysis   Henrik Bengtsson
• [BioC] problems loading imagene data with limma   Ingunn Berget
• [BioC] P-values returned from siggenes's sam() function   Michal Blazejczyk
• [BioC] Upgrading R   Michal Blazejczyk
• [BioC] Correlating all pairs of genes in a gene expression matrix?   Dan Bolser
• [BioC] quantile robust and RMA in xps   Ben Bolstad
• [BioC] Rmaanova with nested design: model construction   Aurélie Bonin
• [BioC] KEGGSOAP install problem   Daniel Brewer
• [BioC] problem with reading agilent microarray data into agi4x44preprocess   Jarek Bryk
• [BioC] comparing affymetrix and agilent microarray data   Jarek Bryk
• [BioC] biomaRt - current devel version of biomaRt+RCurl don't work   James Bullard
• [BioC] smida won't load in R 2.9   Vincent Carey
• [BioC] 'RG' looks like a pre-2.4.0 S4 object: please recreate it   Vincent Carey
• [BioC] problem of cMAP package   Vincent Carey
• [BioC] Stange message with getOption("device") in OSX   Vincent Carey
• [BioC] Stange message with getOption("device") in OSX   Vincent Carey
• [BioC] problems of GenABEL   Vincent Carey
• [BioC] mislinked task views?   Vincent Carey
• [BioC] Problem with Hopach: "Error in dmat[ord, ]"   Vincent Carey
• [BioC] question using GSEABase   Vincent Carey
• [BioC] help with dataset   Vincent Carey
• [BioC] KEGG: gene ids for nodes in a pathway   Marc Carlson
• [BioC] KEGGHyperGParams variable "mouse4302PATH2EG" was not found   Marc Carlson
• [BioC] KEGGHyperGParams variable "mouse4302PATH2EG" was not found   Marc Carlson
• [BioC] how often are annotation packages updated (with respect to hgu133a.db and hgu133plus2.db)   Marc Carlson
• [BioC] Affy paeg1a (pseudomonas) annotation   Marc Carlson
• [BioC] Problem with hyperGTest using ath1121501.db -- oops - another one !   Marc Carlson
• [BioC] GO.db redundance   Marc Carlson
• [BioC] Category: testing for non-random chromosomal distribution of DE genes   Marc Carlson
• [BioC] about columm "size" in out of hyperGtest ( Gostat package)   Marc Carlson
• [BioC] Upgrading R   arnaud Le Cavorzin
• [BioC] [Fwd: [Fwd: loading SPOT file]]   Barbara Cegielska
• [BioC] 'RG' looks like a pre-2.4.0 S4 object: please recreate it   Barbara Cegielska
• [BioC] how to merge replicate spots   Barbara Cegielska
• [BioC] KEGGHyperGParams variable "mouse4302PATH2EG" was not found   Tony Chiang
• [BioC] KEGGgraph: gene ids for nodes in a pathway   Tony Chiang
• [BioC] biomaRt - current devel version of biomaRt+RCurl don't work   Tony Chiang
• [BioC] maSigPro and EMV no longer available for windows.   Ana Conesa
• [BioC] KEGGHyperGParams variable "mouse4302PATH2EG" was not found   John Coulthard
• [BioC] Basic Q on dye- swap   Mark Cowley
• [BioC] One-color spotted microarrays analysis   Mark Cowley
• [BioC] readChp (affxparser) segfaults   Gábor Csárdi
• [BioC] readChp (affxparser) segfaults   Gábor Csárdi
• [BioC] multiple ColSideColors-type annotations on a heatmap   Sean Davis
• [BioC] smida won't load in R 2.9   Sean Davis
• [BioC] Finding differentially expressed genes using Ebayes   Sean Davis
• [BioC] Normalization of arrays where most of the genes change   Sean Davis
• [BioC] rtracklayer and UCSC   Sean Davis
• [BioC] GEOquery and parsing SOFT files   Sean Davis
• [BioC] GEOquery and parsing SOFT files   Sean Davis
• [BioC] problem updating packages importing the package "MASS"   Sean Davis
• [BioC] problem updating packages importing the package "MASS"   Sean Davis
• [BioC] autocorrelation analysis   Zeljko Debeljak
• [BioC] snapCGH fails in runBioHMM   Ramon Diaz-Uriarte
• [BioC] snapCGH fails in runBioHMM   Ramon Diaz-Uriarte
• [BioC] snapCGH fails in runBioHMM   Ramon Diaz-Uriarte
• [BioC] readFASTA Arguments   Colleen Doherty
• [BioC] intraSpotCorrelation consensus values for Single Channel analysis in limma   Jenny Drnevich
• [BioC] Call for participants of CAMDA2009   Pan Du
• [BioC] beadarray: outliers but not summary in log2-scale?   Mark Dunning
• [BioC] Stange message with getOption("device") in OSX   "M. Gonzalo Claros Díaz"
• [BioC] Stange message with getOption("device") in OSX   "M. Gonzalo Claros Díaz"
• [BioC] gcrma and unable to access brainarray.mbni.med.umich.edu...   Loren Engrav
• [BioC] quantile robust and RMA in xps   Mayte Suarez Farinas
• [BioC] changes in GeneAnnot custom CDF annotation packages   Francesco Ferrari
• [BioC] running MBEI (PM-MM) using expresso   Javier Pérez Florido
• [BioC] running MBEI (PM-MM) using expresso   Javier Pérez Florido
• [BioC] running MBEI (PM-MM) using expresso   Javier Pérez Florido
• [BioC] how to merge replicate spots   Richard Friedman
• [BioC] Rgraphviz: .onLoad error   Michael Friendly
• [BioC] Rgraphviz: .onLoad error   Michael Friendly
• [BioC] how to avoid outliers   John Antonydas Gaspar
• [BioC] R2.10 and BioC 2.5 where to report bugs?   Laurent Gatto
• [BioC] (no subject)   Laurent Gautier
• [BioC] Showing two datasets in the same plot   Laurent Gautier
• [BioC] Warning in compute.affinities.local()   Laurent Gautier
• [BioC] How can I get the normalized data for each probe before summarizing in oligo package?   Laurent Gautier
• [BioC] fold-change when no expression to high expression   Laurent Gautier
• [BioC] problem of cMAP package   Robert Gentleman
• [BioC] Upgrading R   Robert Gentleman
• [BioC] Upgrading R   Robert Gentleman
• [BioC] Cannot install GO & KEGG   Robert Gentleman
• [BioC] Error from using featureFilter (genefilter package)   Robert Gentleman
• [BioC] problem updating packages importing the package "MASS"   Robert Gentleman
• [BioC] maSigPro and EMV no longer available for windows.   Giulio Di Giovanni
• [BioC] maSigPro and EMV no longer available for windows.   Giulio Di Giovanni
• [BioC] zooming in a cluster tree   Thomas Girke
• [BioC] Correlating all pairs of genes in a gene expression matrix?   Thomas Girke
• [BioC] Venn Diagram of 4 Sets   Thomas Girke
• [BioC] Venn Diagram of 4 Sets   Thomas Girke
• [BioC] Problem with hyperGTest using ath1121501.db   Ulrike Goebel
• [BioC] Problem with hyperGTest using ath1121501.db   Ulrike Goebel
• [BioC] Problem with hyperGTest using ath1121501.db -- oops - another one !   Ulrike Goebel
• [BioC] help with   Alberto Goldoni
• [BioC] help with dataset   Alberto Goldoni
• [BioC] help with dataset   Alberto Goldoni
• [BioC] About Volcano Plot   Priscila Grynberg
• [BioC] About Volcano Plot   Priscila Grynberg
• [BioC] About NormExp+offset=50   Priscila Grynberg
• [BioC] MAS5 to selected average   Dr Balazs Gyorffy
• [BioC] flowClust results in subset filters   Florian Hahne
• [BioC] flowClust results in subset filters   Florian Hahne
• [BioC] Upgrading R   Florian Hahne
• [BioC] Stange message with getOption("device") in OSX   Florian Hahne
• [BioC] FlowViz graphics problems   Florian Hahne
• [BioC] biomaRt - current devel version of biomaRt+RCurl don't work   Florian Hahne
• [BioC] [Bioc] Is Nimblegen Training worth it?   Thomas Hampton
• [BioC] Affy paeg1a (pseudomonas) annotation   Thomas Hampton
• [BioC] About Volcano Plot   Thomas Hampton
• [BioC] Axes in Volcano Plots   Thomas Hampton
• [BioC] Venn Diagram of 4 Sets   Thomas Hampton
• [BioC] Venn Diagram of 4 Sets   Thomas Hampton
• [BioC] (control vs treatment) in (wildtype vs mutant) microarray analysis   Thomas Hampton
• [BioC] (no subject)   Kasper Daniel Hansen
• [BioC] installation of Rgraphviz   Kasper Daniel Hansen
• [BioC] installation of Rgraphviz   Kasper Daniel Hansen
• [BioC] readChp (affxparser) segfaults   Kasper Daniel Hansen
• [BioC] Rgraphviz: .onLoad error   Kasper Daniel Hansen
• [BioC] how often are annotation packages updated (with respect to hgu133a.db and hgu133plus2.db)   Kasper Daniel Hansen
• [BioC] readChp (affxparser) segfaults   Kasper Daniel Hansen
• [BioC] rtracklayer and UCSC   Kasper Daniel Hansen
• [BioC] Normalization of arrays where most of the genes change   He, Yiwen (NIH/CIT) [C]
• [BioC] Normalization of arrays where most of the genes change   He, Yiwen (NIH/CIT) [C]
• [BioC] Upgrading R   Bryan Hepworth
• [BioC] Finding differentially expressed genes using Ebayes   John Herbert
• [BioC] Finding differentially expressed genes using Ebayes   John Herbert
• [BioC] function log2ratios() missing in snapCGH ?   Winfried Hofmann
• [BioC] LIMMA: warning coercing argument of type 'double' to logical   Hooiveld, Guido
• [BioC] problems of GenABEL   Ping-Hsun Hsieh
• [BioC] Design matrix about a split plot design in Limma   Hu, Juan
• [BioC] EBImage installation   Wolfgang Huber
• [BioC] Axes in Volcano Plots   Wolfgang Huber
• [BioC] http://www.bioconductor.org not online   Wolfgang Huber
• [BioC] KLdist function with unequal sample sizes   Wolfgang Huber
• [BioC] memory invalid permission with qc()   Wolfgang Huber
• [BioC] Error from using featureFilter (genefilter package)   Wolfgang Huber
• [BioC] GEOquery and parsing SOFT files   Wolfgang Huber
• [BioC] Error in ebayes: No residual degrees of freedom in linear model fits   Wolfgang Huber
• [BioC] normalizeByReference package for Affymetrix ChIP-chip data   Wolfgang Huber
• [BioC] One-color spotted microarrays analysis   Wolfgang Huber
• [BioC] One-color spotted microarrays analysis   Wolfgang Huber
• [BioC] biomaRt - current devel version of biomaRt+RCurl don't work   Wolfgang Huber
• [BioC] fold-change when no expression to high expression   Wolfgang Huber
• [BioC] Yet another nested design in limma   Paolo Innocenti
• [BioC] Yet another nested design in limma   Paolo Innocenti
• [BioC] Category: testing for non-random chromosomal distribution of DE genes   Paolo Innocenti
• [BioC] Problem with Hopach: "Error in dmat[ord, ]"   Paolo Innocenti
• [BioC] Problem with Hopach: "Error in dmat[ord, ]"   Paolo Innocenti
• [BioC] Warning in compute.affinities.local()   Naoki Irie
• [BioC] exon.pmcdf and mouseexon.pmcdf   Lakshmanan Iyer
• [BioC] normalizeByReference package for Affymetrix ChIP-chip data   JENNIFER JUDY
• [BioC] How to get gene information   Kay Jaja
• [BioC] intraSpotCorrelation consensus values for Single Channel analysis in limma   Thierry Janssens
• [BioC] intraSpotCorrelation consensus values for Single Channel analysis in limma   Thierry Janssens
• [BioC] limma separate channel analysis: extremely low consensus intraspotcorrelation   Thierry Janssens
• [BioC] (control vs treatment) in (wildtype vs mutant) microarray analysis   Cheng-Yuan Kao
• [BioC] How to download multiple packages   Narendra Kaushik
• [BioC] problem with biocLite("Biobase") -- results in looping of download   Mark Kimpel
• [BioC] problem with biocLite("Biobase") -- results in looping of download   Mark Kimpel
• [BioC] problem updating packages importing the package "MASS"   Mark Kimpel
• [BioC] Ensembl mart release 54: Useful information   Rhoda Kinsella
• [BioC] nsFilter() errors on ExpressionSetIllumina data object   Elliot Kleiman
• [BioC] limma - Identifying interactions   Michal Kolář
• [BioC] OutlierD package implementation   Ashwin Kumar
• [BioC] GOstat implementation for UHN12K chips   Ashwin Kumar
• [BioC] Packages not getting installed   Ashwin Kumar
• [BioC] Cannot install GO & KEGG   Ashwin Kumar
• [BioC] "GOstat" package not installing   Ashwin Kumar
• [BioC] "GOstat" package not installing   Ashwin Kumar
• [BioC] mislinked task views?   Wacek Kusnierczyk
• [BioC] mislinked task views?   Wacek Kusnierczyk
• [BioC] GEOquery and parsing SOFT files   Wacek Kusnierczyk
• [BioC] GEOquery and parsing SOFT files   Wacek Kusnierczyk
• [BioC] GEOquery and parsing SOFT files   Wacek Kusnierczyk
• [BioC] GEOquery and parsing SOFT files   Wacek Kusnierczyk
• [BioC] rtracklayer and UCSC   Michael Lawrence
• [BioC] limma: is layout really necessary for non-printtip normalization?   Michael Lawrence
• [BioC] rtracklayer and UCSC   Michael Lawrence
• [BioC] How can I get the normalized data for each probe before summarizing in oligo package?   Tae-Ho Lee
• [BioC] Problem with duplicateCorrelation in LIMMA   York Lee
• [BioC] Problem with duplicateCorrelation in LIMMA   York Lee
• [BioC] R2.10 and BioC 2.5 where to report bugs?   Paul Leo
• [BioC] R2.10 and BioC 2.5 where to report bugs?   Paul Leo
• [BioC] R2.10 and BioC 2.5 where to report bugs?   Paul Leo
• [BioC] biomaRt - current devel version of biomaRt+RCurl don't work   Paul Leo
• [BioC] demo code for R package   Steve Lianoglou
• [BioC] Upgrading R   Steve Lianoglou
• [BioC] "GOstat" package not installing   Steve Lianoglou
• [BioC] "GOstat" package not installing   Steve Lianoglou
• [BioC] flowClust results in subset filters   Kenneth Lo
• [BioC] flowClust results in subset filters   Kenneth Lo
• [BioC] flowClust installation on OS X   Kenneth Lo
• [BioC] read.targets() in the Agi4x44PreProcess package   Pedro Lopez-Romero
• [BioC] microRNA Agilent normalization   Pedro Lopez-Romero
• [BioC] mget() error with NA values   James W. MacDonald
• [BioC] KEGG: gene ids for nodes in a pathway   James W. MacDonald
• [BioC] gcrma and unable to access brainarray.mbni.med.umich.edu...   James W. MacDonald
• [BioC] limma - Identifying interactions   James W. MacDonald
• [BioC] limma - Identifying interactions   James W. MacDonald
• [BioC] Finding differentially expressed genes using Ebayes   James W. MacDonald
• [BioC] GOstat implementation for UHN12K chips   James W. MacDonald
• [BioC] exon.pmcdf and mouseexon.pmcdf   James W. MacDonald
• [BioC] Finding differentially expressed genes using Ebayes   James W. MacDonald
• [BioC] Packages not getting installed   James W. MacDonald
• [BioC] paired t-test   James W. MacDonald
• [BioC] CDF packages   James W. MacDonald
• [BioC] running MBEI (PM-MM) using expresso   James W. MacDonald
• [BioC] running MBEI (PM-MM) using expresso   James W. MacDonald
• [BioC] Affy output   James W. MacDonald
• [BioC] Affy output   James W. MacDonald
• [BioC] limma and matrix design for single channel arrays - in search of a primer.   James W. MacDonald
• [BioC] memory invalid permission with qc()   James W. MacDonald
• [BioC] memory invalid permission with qc()   James W. MacDonald
• [BioC] memory invalid permission with qc()   James W. MacDonald
• [BioC] Limma analyse factorial data with two-color arrays   James W. MacDonald
• [BioC] RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'   Ben Madin
• [BioC] Bioconductor Digest, Vol 75, Issue 12   Manel, Nicolas
• [BioC] snapCGH fails in runBioHMM   J-C. Marioni
• [BioC] fold-change when no expression to high expression   Matthew McCormack
• [BioC] KEGGSOAP: problem with get.pathways.by.genes()   Julien Meunier
• [BioC] KEGGSOAP: problem with get.pathways.by.genes()   Julien Meunier
• [BioC] Venn Diagram of 4 Sets   Steffen Moeller
• [BioC] extracting specific columns from a table   Saroj K Mohapatra
• [BioC] Installing hthgu133acdf_2.4.0 Was: Re: (no subject)   Saroj K Mohapatra
• [BioC] KEGG: gene ids for nodes in a pathway   Saroj K Mohapatra
• [BioC] Finding differentially expressed genes using Ebayes   Saroj K Mohapatra
• [BioC] KEGGSOAP: problem with get.pathways.by.genes()   Saroj K Mohapatra
• [BioC] KEGGSOAP: problem with get.pathways.by.genes()   Saroj K Mohapatra
• [BioC] upregulated or downregulated?   Saroj K Mohapatra
• [BioC] upregulated or downregulated?   Saroj K Mohapatra
• [BioC] (control vs treatment) in (wildtype vs mutant) microarray analysis   Saroj K Mohapatra
• [BioC] About NormExp+offset=50   Saroj K Mohapatra
• [BioC] help with dataset   Saroj K Mohapatra
• [BioC] Installation of a custom cdf hs133phsentrezgcdf   Saroj K Mohapatra
• [BioC] How to get gene information   Saroj K Mohapatra
• [BioC] How to get gene information   Saroj K Mohapatra
• [BioC] Beta score of DNA methylation assays   Saroj K Mohapatra
• [BioC] (no subject)   Martin Morgan
• [BioC] installation of Rgraphviz   Martin Morgan
• [BioC] Can BioC still convert exprSet to ExpressionSet?   Martin Morgan
• [BioC] Can BioC still convert exprSet to ExpressionSet?   Martin Morgan
• [BioC] readFASTA Arguments   Martin Morgan
• [BioC] Error using summary method on GOHyperGResult object   Martin Morgan
• [BioC] Error from using featureFilter (genefilter package)   Martin Morgan
• [BioC] past bioc releases   Martin Morgan
• [BioC] RWebServices failing on mkserver (ant) target.   Martin Morgan
• [BioC] problem with biocLite("Biobase") -- results in looping of download   Martin Morgan
• [BioC] problem with biocLite("Biobase") -- results in looping of download   Martin Morgan
• [BioC] question using GSEABase   Martin Morgan
• [BioC] question using GSEABase   Martin Morgan
• [BioC] help with dataset   Martin Morgan
• [BioC] function error   Martin Morgan
• [BioC] help with dataset   Martin Morgan
• [BioC] How to plot gene on their chromosome?   Martin Morgan
• [BioC] JoVE: New Video Articles on Biomedical Research Techniques   Moshe Pritsker, Editor, JoVE
• [BioC] Simple beadarraySNP analysis   Dmitri Mouradov
• [BioC] AnnotationDbi for organisms not on bioconductor.org   Michael Muratet
• [BioC] memory invalid permission with qc()   Simon Noël
• [BioC] memory invalid permission with qc()   Simon Noël
• [BioC] memory invalid permission with qc()   Simon Noël
• [BioC] memory invalid permission with qc()   Simon Noël
• [BioC] memory invalid permission with qc()   Simon Noël
• [BioC] memory invalid permission with qc()   Simon Noël
• [BioC] How to plot gene on their chromosome?   Simon Noël
• [BioC] How to plot gene on their chromosome?   Simon Noël
• [BioC] How to plot gene on their chromosome?   Simon Noël
• [BioC] How to plot gene on their chromosome?   Simon Noël
• [BioC] exon.pmcdf and mouseexon.pmcdf   Michal Okoniewski
• [BioC] Subject: Re: Normalization of arrays where most of the genes change   Alicia Oshlack
• [BioC] problem using annotation database with annaffy   Georg Otto
• [BioC] News-Witness the REAL IMAGE of Quark-Gluon Plasma   ABSOLUTE PROJECT
• [BioC] Bioconductor package to map probe set ids from one chip to another chip   Hervé Pagès
• [BioC] PWM matching using matchPWM in Biostrings   Hervé Pagès
• [BioC] "GOstat" package not installing   Hervé Pagès
• [BioC] How to plot gene on their chromosome?   Hervé Pagès
• [BioC] no applicable method for "LD"   Hervé Pagès
• [BioC] maSigPro and EMV no longer available for windows.   Hervé Pagès
• [BioC] R2.10 and BioC 2.5 where to report bugs?   Hervé Pagès
• [BioC] function error   Renata Paiva
• [BioC] (no subject)   Richard Pearson
• [BioC] How to download multiple packages   Richard Pearson
• [BioC] read.targets() in the Agi4x44PreProcess package   Massimo Pinto
• [BioC] read.targets() in the Agi4x44PreProcess package   Massimo Pinto
• [BioC] read.targets() in the Agi4x44PreProcess package   Massimo Pinto
• [BioC] limma and matrix design for single channel arrays - in search of a primer.   Massimo Pinto
• [BioC] limma and matrix design for single channel arrays - in search of a primer.   Massimo Pinto
• [BioC] One-color spotted microarrays analysis   Massimo Pinto
• [BioC] One-color spotted microarrays analysis   Massimo Pinto
• [BioC] On the house bets for an entire day   Platinum Play
• [BioC] Important Message Notification   Abbey National Plc
• [BioC] maSigPro time problem (2.trial)   Klaus-Peter Pleissner
• [BioC] One-color spotted microarrays analysis   Pier-Luc Poulin
• [BioC] One-color spotted microarrays analysis   Pier-Luc Poulin
• [BioC] One-color spotted microarrays analysis   Pier-Luc Poulin
• [BioC] A question on microarray timeseries data   Anjan Purkayastha
• [BioC] Microarray experimental designs   Usuario R
• [BioC] error in runBioHMM() (package snapCGH)   Wolfgang Raffelsberger
• [BioC] snapCGH fails in runBioHMM   Wolfgang Raffelsberger
• [BioC] Beta score of DNA methylation assays   Adaikalavan Ramasamy
• [BioC] GenomeGraphs 1.4.0 fails to plot empty GeneRegion   Tim Rayner
• [BioC] multiple ColSideColors-type annotations on a heatmap   James F. Reid
• [BioC] demo code for R package   James F. Reid
• [BioC] IQR implementation in varFiler and nsFilter (genefilter package)   James F. Reid
• [BioC] PWM matching using matchPWM in Biostrings   Kristoffer Rigbolt
• [BioC] filtered Exon Arrays: Core vs Extended Dataset   Mark Robinson
• [BioC] Can BioC still convert exprSet to ExpressionSet?   David Rossell
• [BioC] Can BioC still convert exprSet to ExpressionSet?   David Rossell
• [BioC] Software Demo for Summer Research Grant   RICHARD SEGALL
• [BioC] Nimblegen / Ringo / Preprocess error: inherits(myRG, "RGList") is not TRUE   JEAN-YVES SGRO
• [BioC] Nimblegen / Ringo / Preprocess error: inherits(myRG, "RGList") is not TRUE   JEAN-YVES SGRO
• [BioC] Error in ebayes: No residual degrees of freedom in linear model fits   Lucas Santana dos Santos
• [BioC] Error in ebayes: No residual degrees of freedom in linear model fits   Lucas Santana dos Santos
• [BioC] readBGX - sigma2.1 error   Lucas Santana dos Santos
• [BioC] readBGX - sigma2.1 error   Lucas Santana dos Santos
• [BioC] FlowViz graphics problems   Deepayan Sarkar
• [BioC] Upgrading R   Sarmah, Chintanu Kumar
• [BioC] Upgrading R   Sarmah, Chintanu Kumar
• [BioC] Affy output   Sarmah, Chintanu Kumar
• [BioC] Affy output   Sarmah, Chintanu Kumar
• [BioC] Affy output   Sarmah, Chintanu Kumar
• [BioC] rtracklayer and UCSC   Keith Satterley
• [BioC] filtered Exon Arrays: Core vs Extended Dataset   Lana Schaffer
• [BioC] FlowViz graphics problems   Anja Schiel
• [BioC] FlowViz graphics problems   Anja Schiel
• [BioC] P-values returned from siggenes's sam() function   Holger Schwender
• [BioC] P-values returned from siggenes's sam() function   Holger Schwender
• [BioC] KEGGGraph: some complexed proteins are orphans in graphNEL   Paul Shannon
• [BioC] KEGGGraph: some complexed proteins are orphans in graphNEL   Paul Shannon
• [BioC] query BiomaRt for the coordinates of the coding regions within individual exons?   Paul Shannon
• [BioC] Limma and ANOVA with repeated measures   Sharon
• [BioC] RWebServices failing on mkserver (ant) target.   Michael P Shipway
• [BioC] RWebServices failing on mkserver (ant) target.   Michael P Shipway
• [BioC] RWebServices failing on mkserver (ant) target.   Michael P Shipway
• [BioC] KEGG: gene ids for nodes in a pathway   Sim, Fraser
• [BioC] Upgrading R   Sim, Fraser
• [BioC] Error using summary method on GOHyperGResult object   Sim, Fraser
• [BioC] KEGG: gene ids for nodes in a pathway   Tim Smith
• [BioC] KEGG: gene ids for nodes in a pathway   Tim Smith
• [BioC] KEGG: gene ids for nodes in a pathway   Tim Smith
• [BioC] KEGGgraph: gene ids for nodes in a pathway   Tim Smith
• [BioC] KEGGgraph: gene ids for nodes in a pathway   Tim Smith
• [BioC] Yet another nested design in limma   Gordon K Smyth
• [BioC] Yet another nested design in limma   Gordon K Smyth
• [BioC] Problem with duplicateCorrelation in LIMMA   Gordon K Smyth
• [BioC] intraSpotCorrelation   Gordon K Smyth
• [BioC] LIMMA: warning coercing argument of type 'double' to logical   Gordon K Smyth
• [BioC] Statistics position at Roche, Basel   Steiner, Guido
• [BioC] HilbertVis troubles   Tobias Straub
• [BioC] quantile robust and RMA in xps   Mayte Suarez-Farinas
• [BioC] quantile robust and RMA in xps   Mayte Suarez-Farinas
• [BioC] quantile robust and RMA in xps   Mayte Suarez-Farinas
• [BioC] quantile robust and RMA in xps   Mayte Suarez-Farinas
• [BioC] paired t-test   Yogi Sundaravadanam
• [BioC] limma - Identifying interactions   Suzanne Szak
• [BioC] Question about using oligo and SNPchip for copy number analysis   Min-Han Tan
• [BioC] Installation of a custom cdf hs133phsentrezgcdf   Min-Han Tan
• [BioC] random positioning of duplicate spots   Vishal Thapar
• [BioC] Basic Q on dye- swap   Christina Tigress
• [BioC] Nimblegen / Ringo / Preprocess error: inherits(myRG, "RGList") is not TRUE   Joern Toedling
• [BioC] June R/Splus Courses: Nationwide Back2back (1) R/S+ Fundamentals and (2) R/S-Plus Advanced Programming. in San Francisco, New York City, Boston, Washington DC, Seattle and Salt Lake City   Sue Turner
• [BioC] What Turns Him On - A Guuide to Talking Dirty to Your Boyfriend   Brendon Villega
• [BioC] multiple ColSideColors-type annotations on a heatmap   Levi Waldron
• [BioC] multiple ColSideColors-type annotations on a heatmap   Levi Waldron
• [BioC] LIMMA contrast matrix for three-way ANOVA with many comparisons   Levi Waldron
• [BioC] xps - number of probesets for HuGene10ST array   Michael Walter
• [BioC] xps - number of probesets for HuGene10ST array   Michael Walter
• [BioC] xps - number of probesets for HuGene10ST array   Michael Walter
• [BioC] Agilent 2 colour spike-in controls   Nathan S. Watson-Haigh
• [BioC] limma and technical rep dye-swaps   Nathan S. Watson-Haigh
• [BioC] Agilent duplicate spots and multiple probes per gene   Nathan S. Watson-Haigh
• [BioC] Limma analyse factorial data with two-color arrays   Jabez Wilson
• [BioC] Limma analyse factorial data with two-color arrays   Jabez Wilson
• [BioC] Limma analyse factorial data with two-color arrays   Jabez Wilson
• [BioC] Limma analyse factorial data with two-color arrays   Jabez Wilson
• [BioC] Showing two datasets in the same plot   Peder Worning
• [BioC] random positioning of duplicate spots   Peder Worning
• [BioC] Agilent duplicate spots and multiple probes per gene   Peder Worning
• [BioC] question about separating color channels for dual-channel cDNA microarray   Wei Xu
• [BioC] how often are annotation packages updated (with respect to hgu133a.db and hgu133plus2.db)   Andrew Yee
• [BioC] how often are annotation packages updated (with respect to hgu133a.db and hgu133plus2.db)   Andrew Yee
• [BioC] problem of cMAP package   Youn, Ahrim (NIH/NCI) [F]
• [BioC] KEGGGraph: some complexed proteins are orphans in graphNEL   Jitao David Zhang
• [BioC] KEGGGraph: some complexed proteins are orphans in graphNEL   Jitao David Zhang
• [BioC] KEGGGraph: some complexed proteins are orphans in graphNEL   Jitao David Zhang
• [BioC] KEGG: gene ids for nodes in a pathway   Jitao David Zhang
• [BioC] KEGGgraph: gene ids for nodes in a pathway   Jitao David Zhang
• [BioC] http://www.bioconductor.org not online   Jitao David Zhang
• [BioC] flowClust installation on OS X   Noah Zimmerman
• [BioC] Further analysis after using MEDME?   Prashantha Hebbar Kiradi [MU-MLSC]
• [BioC] onechannelGUI error,   PJARES at clinic.ub.es
• [BioC] Affy paeg1a (pseudomonas) annotation   cstrato
• [BioC] xps - number of probesets for HuGene10ST array   cstrato
• [BioC] xps - number of probesets for HuGene10ST array   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] quantile robust and RMA in xps   cstrato
• [BioC] fold-change when no expression to high expression   J.delasHeras at ed.ac.uk
• [BioC] GO.db redundance   mcarlson at fhcrc.org
• [BioC] upregulated or downregulated?   biosciencegeek at gmail.com
• [BioC] upregulated or downregulated?   biosciencegeek at gmail.com
• [BioC] installation of exon.pmcdf and XMAP   chunjiang he
• [BioC] exon.pmcdf and mouseexon.pmcdf   chunjiang he
• [BioC] CDF packages   chunjiang he
• [BioC] question using GSEABase   chunjiang he
• [BioC] Error from using featureFilter (genefilter package)   ywchen at jimmy.harvard.edu
• [BioC] Error from using featureFilter (genefilter package)   ywchen at jimmy.harvard.edu
• [BioC] Error from using featureFilter (genefilter package)   ywchen at jimmy.harvard.edu
• [BioC] smida won't load in R 2.9   katrien michiels
• [BioC] Further analysis after using MEDME?   mattia pelizzola
• [BioC] autocorrelation analysis   mattia pelizzola
• [BioC] Package Icens_1.16.0.tar.gz has been built for Windows   Uwe.Ligges at r-project.org
• [BioC] Package gpls_1.16.0.tar.gz has been built for Windows   Uwe.Ligges at r-project.org
• [BioC] installation of Rgraphviz   ravi
• [BioC] installation of Rgraphviz   ravi
• [BioC] installation of Rgraphviz   ravi
• [BioC] onechannelGUI error   rcaloger
• [BioC] extracting specific columns from a table   dhaarini s
• [BioC] extracting specific columns from a table   dhaarini s
• [BioC] zooming in a cluster tree   dhaarini s
• [BioC] log 2 conversion of cDNA   santana sarma
• [BioC] problem with "ls" command   anupam sinha
• [BioC] Packages not getting installed   anna freni sterrantino
• [BioC] function error   anna freni sterrantino
• [BioC] problem with "ls" command   anna freni sterrantino
• [BioC] lokalisten: dein registrierungs-code   summer-infinity
• [BioC] GO.db redundance   giacomo.tuana at unimib.it
• [BioC] about columm "size" in out of hyperGtest ( Gostat package)   gregory voisin
• [BioC] past bioc releases   wangchuanming
• [BioC] past bioc releases   wangchuanming
• [BioC] past bioc releases   wangchuanming
• [BioC] increasing memory for R bg job   carol white
• [BioC] KLdist function with unequal sample sizes   wrighth
• [BioC] demo code for R package   shirley zhang
• [BioC] analyze/import my normalized/summarized affy data in affylmGUI   shirley zhang
• [BioC] Lumi: GenomStudio vs BeadStudio   Ingrid H. G. Østensen
• [BioC] (no subject)   顏厥全
• [BioC] (no subject)   顏厥全

Last message date: Sun May 31 23:23:13 CEST 2009
Archived on: Sun May 31 23:24:50 CEST 2009

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