November 2010 Archives by date

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Starting: Mon Nov 1 04:10:43 CET 2010
Ending: Tue Nov 30 23:16:52 CET 2010
Messages: 510

• [BioC] IRanges, GenomicRanges, GenomicFeatures?   Oleg Moskvin
• [BioC] IRanges, GenomicRanges, GenomicFeatures?   Steve Lianoglou
• [BioC] miRNA mapping   chirag matkar
• [BioC] beadarray observation (nObservations actually) regarding number of beads in Red vs. Grn channels   Tim Triche
• [BioC] filter on Human Gene U133 Plus 2   Yuan Hao
• [BioC] Affy chip annotation changes   Yuan Hao
• [BioC] Affy: reading several types of affymetrix arrays at once   Hyun Ji
• [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
• [BioC] Affy: reading several types of affymetrix arrays at once   Martin Morgan
• [BioC] Affy chip annotation changes   Martin Morgan
• [BioC] Affy chip annotation changes   James W. MacDonald
• [BioC] Affy: reading several types of affymetrix arrays at once   James W. MacDonald
• [BioC] IRanges, GenomicRanges, GenomicFeatures?   Michael Lawrence
• [BioC] Affy chip annotation changes   Yuan Hao
• [BioC] miRNA mapping   Martin Morgan
• [BioC] rtracklayer 'track' method, a viewLimits parameter?   Paul Shannon
• [BioC] rtracklayer 'track' method, a viewLimits parameter?   Michael Lawrence
• [BioC] Generating .CHP files from .CEL files   Janet L Smith
• [BioC] Generating .CHP files from .CEL files   Henrik Bengtsson
• [BioC] Generating .CHP files from .CEL files   Ochsner, Scott A
• [BioC] Affy chip annotation changes   Mark Cowley
• [BioC] Generating .CHP files from .CEL files   Mark Cowley
• [BioC] building annotation package for porcine   Fraser Sim
• [BioC] limma installation trouble   khasanova at berkeley.edu
• [BioC] rtracklayer 'track' method, a viewLimits parameter?   Michael Lawrence
• [BioC] how to plot corr between two tissues/dendrograms   abosco at email.arizona.edu
• [BioC] Generating .CHP files from .CEL files   Janet L Smith
• [BioC] Rsamtools from biocLite using R-devel   Paul Leo
• [BioC] library (sma)   Yee, Sook Wah
• [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
• [BioC] Rsamtools from biocLite using R-devel   Paul Leo
• [BioC] filter on Human Gene U133 Plus 2   Naïma Oumouhou
• [BioC] retrieve genes names after KEGG hypergeometric test   Mike Walter
• [BioC] Affy chip annotation changes   James W. MacDonald
• [BioC] The question about “NPI” normalization method   Ning
• [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
• [BioC] Affy chip annotation changes   Yuan Hao
• [BioC] filter on Human Gene U133 Plus 2   wxu
• [BioC] problems with readIllumina()   koechert, karl
• [BioC] readIllumina(); problem solved   koechert, karl
• [BioC] Affy chip annotation changes   James W. MacDonald
• [BioC] Need help in writing a function   Pradeep Battula
• [BioC] Need help in writing a function   Martin Morgan
• [BioC] Need help in writing a function   Sean Davis
• [BioC] Incomplete EntrezID annotations for the Mouse 430 v2.0 probe-set   ANJAN PURKAYASTHA
• [BioC] Incomplete EntrezID annotations for the Mouse 430 v2.0 probe-set   Martin Morgan
• [BioC] Incomplete EntrezID annotations for the Mouse 430 v2.0 probe-set   ANJAN PURKAYASTHA
• [BioC] What's the meaning of the 'trace' function in heatmap.2?   Michael Muratet
• [BioC] building annotation package for porcine   Marc Carlson
• [BioC] beadarray observation (nObservations actually) regarding number of beads in Red vs. Grn channels   Mark Dunning
• [BioC] Cyclic Loess   viritha kaza
• [BioC] limma installation trouble   Sunny Srivastava
• [BioC] how to plot corr between two tissues/dendrograms   Sean Davis
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Sean Davis
• [BioC] how to plot corr between two tissues/dendrograms   Tim Triche
• [BioC] Incomplete EntrezID annotations for the Mouse 430 v2.0 probe-set   Martin Morgan
• [BioC] limma installation trouble   Martin Morgan
• [BioC] Incomplete EntrezID annotations for the Mouse 430 v2.0 probe-set   Vincent Carey
• [BioC] ROC query   rasanpreet kaur suri
• [BioC] Rsamtools from biocLite using R-devel   Paul Leo
• [BioC] Obtaining unadjusted permutation p-value from GeneMeta package   Seungwoo Hwang
• [BioC] Best way to get updated annotation for BACs   Daniel Brewer
• [BioC] rtracklayer and BED-export   Johannes Waage
• [BioC] rtracklayer and BED-export   Michael Lawrence
• [BioC] Best way to get updated annotation for BACs   Sean Davis
• [BioC] library (sma)   James W. MacDonald
• [BioC] Best way to get updated annotation for BACs   Daniel Brewer
• [BioC] need to clarify RangedData documentation?   Michael Dondrup
• [BioC] need to clarify RangedData documentation?   Steve Lianoglou
• [BioC] need to clarify RangedData documentation?   Michael Dondrup
• [BioC] IRanges: RangedData.values() deletes rownames   Michael Dondrup
• [BioC] need to clarify RangedData documentation?   Steve Lianoglou
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Saurin D. Jani
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Steve Lianoglou
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Saurin D. Jani
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Steve Lianoglou
• [BioC] Best way to get updated annotation for BACs   Sean Davis
• [BioC] "No significant surrogate variables" for SVA (surrogate variable analysis)   Jack Luo
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Thomas Girke
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Saurin D. Jani
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Saurin D. Jani
• [BioC] retrieve genes names after KEGG hypergeometric test   Marc Carlson
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Saurin D. Jani
• [BioC] need to clarify RangedData documentation?   Michael Lawrence
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Saurin D. Jani
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Sean Davis
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Sean Davis
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Saurin D. Jani
• [BioC] ROC query   Sean Davis
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Thomas Girke
• [BioC] Fwd: how to plot corr between two tissues/dendrograms   Saurin D. Jani
• [BioC] IRanges: RangedData.values() deletes rownames   Michael Lawrence
• [BioC] boxplots using beadarray   Ying W
• [BioC] beadarray controlProfile   Ying W
• [BioC] heatmap Clustering help, two class (Control vs Exp) Experiments,   Saurin D. Jani
• [BioC] gene set enrichment analysis with missing values   heyi xiao
• [BioC] gage package Re: gene set enrichment analysis with missing values   Luo Weijun
• [BioC] Best way to get updated annotation for BACs   Daniel Brewer
• [BioC] subscript out of bounds error when following new beadarray tutorial   Moritz Kebschull
• [BioC] function "uniqueframe"   Naïma Oumouhou
• [BioC] subscript out of bounds error when following new beadarray tutorial   Mark Dunning
• [BioC] Best way to get updated annotation for BACs   Daniel Brewer
• [BioC] Best way to get updated annotation for BACs   Sean Davis
• [BioC] Can any one please help me.   Pradeep Battula
• [BioC] IRanges: RangedData.values() deletes rownames   Michael Dondrup
• [BioC] Can any one please help me.   Sean Davis
• [BioC] gage package Re: gene set enrichment analysis with missing values   heyi xiao
• [BioC] IRanges: RangedData.values() deletes rownames   Michael Lawrence
• [BioC] Introduction to the rsbml functionalities   pj dias
• [BioC] Introduction to the rsbml functionalities   Sean Davis
• [BioC] Workshop on Statistical Challenges and Biomedical Applications of Deep Sequencing Data   Darlene Goldstein
• [BioC] Introduction to the rsbml functionalities   Michael Lawrence
• [BioC] "import.expr.scheme" error in Package "xps"   L Huang
• [BioC] function "uniqueframe"   cstrato
• [BioC] "import.expr.scheme" error in Package "xps"   cstrato
• [BioC] "import.expr.scheme" error in Package "xps"   L Huang
• [BioC] EdgeR - problems running estimateCRDisp   Gordon K Smyth
• [BioC] Help for calculating hybridization free energy using nearest neighbor model   Hasan, Ahmed Ryadh - hasar001
• [BioC] designing an eSet derived object   Wolfgang RAFFELSBERGER
• [BioC] SVGAnnotation   Uwe Ligges
• [BioC] update annotations without updating bioconductor   Robert M. Flight
• [BioC] update annotations without updating bioconductor   James W. MacDonald
• [BioC] update annotations without updating bioconductor   Robert M. Flight
• [BioC] miRNA normalization using affy package?   Michal Blazejczyk
• [BioC] Removing raw probes in affy data   Michal Blazejczyk
• [BioC] core bioconductor packages   Pradeep Battula
• [BioC] RE : core bioconductor packages   Wolfgang RAFFELSBERGER
• [BioC] gage package Re: gene set enrichment analysis with missing values   Luo Weijun
• [BioC] core bioconductor packages   Martin Morgan
• [BioC] update annotations without updating bioconductor   Sean Davis
• [BioC] Removing raw probes in affy data   Hooiveld, Guido
• [BioC] core bioconductor packages   Fraser Sim
• [BioC] update annotations without updating bioconductor   Marc Carlson
• [BioC] Problem with loading packages   Pradeep Battula
• [BioC] Problem with loading packages   Sean Davis
• [BioC] designing an eSet derived object   Martin Morgan
• [BioC] biocLite() partial install of pakcages issue   km
• [BioC] biocLite() partial install of pakcages issue   Martin Morgan
• [BioC] SVGAnnotation   Hervé Pagès
• [BioC] SVGAnnotation   Uwe Ligges
• [BioC] SVGAnnotation   Hervé Pagès
• [BioC] mismatch & replacement   Daniel.Berner at unibas.ch
• [BioC] mismatch & replacement   Martin Morgan
• [BioC] mismatch & replacement   Harris A. Jaffee
• [BioC] The question about “NPI” normalization method   Wolfgang Huber
• [BioC] miRNA normalization using affy package?   Hooiveld, Guido
• [BioC] filter on Human Gene U133 Plus 2   Wolfgang Huber
• [BioC] SVGAnnotation   Uwe Ligges
• [BioC] findOverlaps for GRanges   Kasper Daniel Hansen
• [BioC] retrieve genes names after KEGG hypergeometric test   Iain Gallagher
• [BioC] Illumina human HT12 v3. microarray   Pradeep Battula
• [BioC] Is GCRMA influenced by lexicographical order?   Markus Boenn
• [BioC] boxplots using beadarray   Mike Smith
• [BioC] boxplots using beadarray   Mark Dunning
• [BioC] Error in imageplot with .locs files   Mike Smith
• [BioC] beadarray controlProfile   Mark Dunning
• [BioC] problem with arrayQualityMetrics: cannot allocate vector   Jarek Bryk
• [BioC] problem with arrayQualityMetrics: cannot allocate vector   Wolfgang Huber
• [BioC] Can any one please help me regadrding Illumina humanv3.microarray   Pradeep Battula
• [BioC] Is GCRMA influenced by lexicographical order?   Wolfgang Huber
• [BioC] Can any one please help me regadrding Illumina humanv3.microarray   Steve Lianoglou
• [BioC] Is GCRMA influenced by lexicographical order?   Benilton Carvalho
• [BioC] Is GCRMA influenced by lexicographical order?   Zhijin Wu
• [BioC] Is GCRMA influenced by lexicographical order?   Henrik Bengtsson
• [BioC] Is GCRMA influenced by lexicographical order?   Henrik Bengtsson
• [BioC] Is GCRMA influenced by lexicographical order?   Zhijin Wu
• [BioC] Is GCRMA influenced by lexicographical order?   Henrik Bengtsson
• [BioC] Is GCRMA influenced by lexicographical order?   Benilton Carvalho
• [BioC] Can any one please help me regadrding Illumina humanv3.microarray   Steve Lianoglou
• [BioC] Is GCRMA influenced by lexicographical order?   Zhijin Wu
• [BioC] R function for mapping mouse genes to homologous human genes ?   Zhihao Ding
• [BioC] GEOquery: can I use getGEO to retrieve the metadata annotation only   aedin culhane
• [BioC] GEOquery: can I use getGEO to retrieve the metadata annotation only   Sean Davis
• [BioC] GEOquery: can I use getGEO to retrieve the metadata annotation only   aedin culhane
• [BioC] GEOquery: can I use getGEO to retrieve the metadata annotation only   Sean Davis
• [BioC] Is GCRMA influenced by lexicographical order?   Henrik Bengtsson
• [BioC] Can any one please help me regadrding Illumina humanv3.microarray   Pradeep Battula
• [BioC] Need suggestions for constructing GOgraph   Pradeep Battula
• [BioC] Need suggestions for constructing GOgraph   Sean Davis
• [BioC] Need suggestions for constructing GOgraph   Pradeep Battula
• [BioC] Need suggestions for constructing GOgraph   Sean Davis
• [BioC] one problem about IRanges Package   cao zongfu
• [BioC] Error in makeGeneRegion from GenomeGraphs   Mark Dunning
• [BioC] one problem about IRanges Package   Vincent Carey
• [BioC] Rsamtools Error: vector of negative length   Christoph Bartenhagen
• [BioC] romer in limma question   Iain Gallagher
• [BioC] Rsamtools Error: vector of negative length   Martin Morgan
• [BioC] decideTests limitation to certain lfc and p values not working   Moritz Kebschull
• [BioC] Error in makeGeneRegion from GenomeGraphs   Mike Smith
• [BioC] Rsamtools Error: vector of negative length   Christoph Bartenhagen
• [BioC] decideTests limitation to certain lfc and p values not working   Alex Gutteridge
• [BioC] decideTests limitation to certain lfc and p values not working   Alex Gutteridge
• [BioC] Rsamtools Error: vector of negative length   Martin Morgan
• [BioC] R function for mapping mouse genes to homologous human genes ?   James W. MacDonald
• [BioC] can't get limma for R 2.12.0 x64?   Jenny Drnevich
• [BioC] can't get limma for R 2.12.0 x64?   mkbehnke at gmail.com
• [BioC] romer in limma question   Di Wu
• [BioC] can't get limma for R 2.12.0 x64?   Hervé Pagès
• [BioC] Regression using LIMMA   somnath bandyopadhyay
• [BioC] about "HumMeth27QCReport"   gregory voisin
• [BioC] can't get limma for R 2.12.0 x64?   Hervé Pagès
• [BioC] Regression using LIMMA   Sunny Srivastava
• [BioC] Regression using LIMMA   Naomi Altman
• [BioC] edgeR: error in readDGE   村田 卓也
• [BioC] Background correction with just a few spots   January Weiner
• [BioC] edgeR: error in readDGE   Wolfgang Huber
• [BioC] Background correction with just a few spots   Wolfgang Huber
• [BioC] arrayQualityMetrics::aqm.nuse and GeneST   Tim Rayner
• [BioC] arrayQualityMetrics::aqm.nuse and GeneST   Wolfgang Huber
• [BioC] [maSigPro] T.fit - Error in rownames(coefficients)   Maciej Jończyk
• [BioC] Suggestions for Chip-seq differential expression analysis   Vishal Thapar
• [BioC] can't get limma for R 2.12.0 x64?   Jenny Drnevich
• [BioC] problem with arrayQualityMetrics: cannot allocate vector   Wolfgang Huber
• [BioC] SAM results   Michal Blazejczyk
• [BioC] SAM results   Holger Schwender
• [BioC] RCytoscape performance   Chad Burrus
• [BioC] Background correction with just a few spots   Wei Shi
• [BioC] Suggestions for Chip-seq differential expression analysis   Mark Robinson
• [BioC] can't get limma for R 2.12.0 x64?   Jenny Drnevich
• [BioC] can't get limma for R 2.12.0 x64?   Hervé Pagès
• [BioC] Suggestions for Chip-seq differential expression analysis   Michael Lawrence
• [BioC] romer in limma question   Gordon K Smyth
• [BioC] crlmmCopyNumber and batch issues   Ricardo Vidal
• [BioC] one problem about IRanges Package   Vincent Carey
• [BioC] a few questions on DESeq   sunghee OH
• [BioC] About KEGGgraph supplementary information   Jitao Zhang
• [BioC] [maSigPro] T.fit - Error in rownames(coefficients)   Mª José Nueda
• [BioC] edgeR: error in readDGE   Wolfgang Huber
• [BioC] beadarray without qcFile   Alex Gutteridge
• [BioC] beadarray, bash, hulk, excludeBrihtBeadNeighbors, et al -- how to use practically?   Mark Dunning
• [BioC] edgeR and FDR values always equals 1   A Gossner
• [BioC] a few questions on DESeq   Simon Anders
• [BioC] beadarray without qcFile   Mark Dunning
• [BioC] edgeR and FDR values always equals 1   Simon Anders
• [BioC] BayesPeak and RangedData obj output   Binbin Liu
• [BioC] BayesPeak and RangedData obj output   Jonathan Cairns
• [BioC] about "HumMeth27QCReport"   Francesco Mancuso
• [BioC] arrayQualityMetrics   Mayte Suarez-Farinas
• [BioC] Limma: How to analyze 1- and 2- colour Agilent   Edwin Groot
• [BioC] arrayQualityMetrics   Dan Tenenbaum
• [BioC] help with Affy ST gene arrays   dnaseq
• [BioC] help with affy st gene arrays   YBao
• [BioC] help with affy st gene arrays   Achilleas Pitsillides
• [BioC] Help with R-code   Pradeep Battula
• [BioC] Help with R-code   Sean Davis
• [BioC] help with affy st gene arrays   YBao
• [BioC] About KEGGgraph supplementary information   Uzun, Alper
• [BioC] edgeR and FDR values always equals 1   Gordon K Smyth
• [BioC] Problems with the package GEOsubission   Fabian Grammes
• [BioC] Background correction with just a few spots   Gordon K Smyth
• [BioC] help with affy st gene arrays   Mark Cowley
• [BioC] help with affy st gene arrays   Vincent Carey
• [BioC] crlmmCopyNumber and batch issues   Ricardo Vidal
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Kemal Akat
• [BioC] drosophila2cdf in simpleaffy / affyQCReport   Assa Yeroslaviz
• [BioC] Background correction with just a few spots   January Weiner
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Wolfgang Huber
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Vincent Carey
• [BioC] Help for model.matrix() in microarray analysis   Michael MOZAR
• [BioC] QCReport: specifying alt CDF (MoGene-1_0-st-v1)?   Assa Yeroslaviz
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Martin Morgan
• [BioC] [maSigPro] T.fit - Error in rownames(coefficients)   Maciej Jończyk
• [BioC] RCytoscape performance   Paul Shannon
• [BioC] help with makeGOGraph   Clémentine Dressaire
• [BioC] fraction or difference   Yolande Tra
• [BioC] Suggestions for Chip-seq differential expression analysis   Vishal Thapar
• [BioC] help with makeGOGraph   Marc Carlson
• [BioC] edgeR and FDR values always equals 1   A Gossner
• [BioC] edgeR and FDR values always equals 1   A Gossner
• [BioC] segmentation for Affy SNP arrays Mapping50K_Hind240   Yan Jiao
• [BioC] help with makeGOGraph   Clémentine Dressaire
• [BioC] help with makeGOGraph   Sean Davis
• [BioC] RCytoscape performance   Chad Burrus
• [BioC] help with makeGOGraph   Clémentine Dressaire
• [BioC] edgeR and FDR values always equals 1   Simon Anders
• [BioC] segmentation for Affy SNP arrays Mapping50K_Hind240   Henrik Bengtsson
• [BioC] IRanges merging query   Vishal Thapar
• [BioC] IRanges merging query   Kasper Daniel Hansen
• [BioC] IRanges merging query   Vishal Thapar
• [BioC] IRanges merging query   Hervé Pagès
• [BioC] backgroundcorrection in beadarray   Hajar Hassani Lahsinoui
• [BioC] IRanges merging query   Vishal Thapar
• [BioC] IRanges merging query   Michael Lawrence
• [BioC] IRanges merging query   Vishal Thapar
• [BioC] [maSigPro] T.fit - Error in rownames(coefficients)   Maciej Jończyk
• [BioC] backgroundcorrection in beadarray   Tim Triche
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Kemal Akat
• [BioC] edgeR and FDR values always equals 1   A Gossner
• [BioC] limma and minimum fold change   Eva Benito Garagorri
• [BioC] limma and minimum fold change   Sean Davis
• [BioC] Limma: How to analyze 1- and 2- colour Agilent   Gordon K Smyth
• [BioC] edgeR and FDR values always equals 1   Mark Robinson
• [BioC] limma and minimum fold change   Wolfgang Huber
• [BioC] MySQL mode is not available in biomaRt?   Takashi Kodama
• [BioC] new arrayQualityMetrics 3.2.3 in release - was: arrayQualityMetrics 3.2.0 in Bioc release 2.7 is broken   Wolfgang Huber
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Wolfgang Huber
• [BioC] fraction or difference   Mark Cowley
• [BioC] help with Affy ST gene arrays   Mark Cowley
• [BioC] limma and minimum fold change   Mark Cowley
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Steffen Durinck
• [BioC] fraction or difference   Yolande Tra
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Kemal Akat
• [BioC] edgeR and FDR values always equals 1   A Gossner
• [BioC] affyQCReport with drosgenome2cdf   Assa Yeroslaviz
• [BioC] qPCR Event Calendar - winter 2010   qPCR Event Calendar
• [BioC] aroma.affymetrix package installation problem   Yan Jiao
• [BioC] How to extract lfc & p-values for probes identified with a Venn diagram   Moritz Kebschull
• [BioC] aroma.affymetrix package installation problem   René Dreos
• [BioC] aroma.affymetrix package installation problem   Sean Davis
• [BioC] How to extract lfc & p-values for probes identified with a Venn diagram   René Dreos
• [BioC] affyQCReport with drosgenome2cdf   James W. MacDonald
• [BioC] aroma.affymetrix package installation problem   Henrik Bengtsson
• [BioC] MySQL mode is not available in biomaRt?   Vincent Carey
• [BioC] seeking advice on analyzing CGH data   Paul Shannon
• [BioC] question regarding to MLInterface   jrwang at itri.org.tw
• [BioC] biomaRt - batch query for chromosome location to gene identifier?   Kemal Akat
• [BioC] affyQCReport with drosgenome2cdf   Assa Yeroslaviz
• [BioC] alignment & SNP calling   Daniel.Berner at unibas.ch
• [BioC] Using eBayes to find P values for individual contrasts   Jason Shoemaker
• [BioC] alignment & SNP calling   Andreia Fonseca
• [BioC] R/Bioconductor validation   elliott harrison
• [BioC] R/Bioconductor validation   Martin Morgan
• [BioC] R/Bioconductor validation   axel.klenk at actelion.com
• [BioC] Group millions of the same DNA sequences?   Xiaohui Wu
• [BioC] RNA-Seq - analysis of time series data?   Jakob Hedegaard
• [BioC] update of crlmm package in BioC 2.7   Robert Scharpf
• [BioC] question regarding to MLInterface   Max Kuhn
• [BioC] Fwd: question regarding to MLInterface   Vincent Carey
• [BioC] totalTest number in ChipPeakAnno   Noah Dowell
• [BioC] limma and minimum fold change   Eva Benito Garagorri
• [BioC] alignment & SNP calling   Kasper Daniel Hansen
• [BioC] backgroundcorrection in beadarray   Hajar Hassani Lahsinoui
• [BioC] SAM with FDR 15%   viritha kaza
• [BioC] Group millions of the same DNA sequences?   Wei Shi
• [BioC] Group millions of the same DNA sequences?   Robert Chapman
• [BioC] Group millions of the same DNA sequences?   Moshe Olshansky
• [BioC] Group millions of the same DNA sequences?   Harris A. Jaffee
• [BioC] Group millions of the same DNA sequences?   Martin Morgan
• [BioC] Using eBayes to find P values for individual contrasts   Mark Cowley
• [BioC] Group millions of the same DNA sequences?   Xiaohui Wu
• [BioC] Group millions of the same DNA sequences?   Aaron Mackey
• [BioC] SAM with FDR 15%   viritha kaza
• [BioC] Group millions of the same DNA sequences?   Harris A. Jaffee
• [BioC] HTqPCR question   Heidi Dvinge
• [BioC] Group millions of the same DNA sequences?   Xiaohui Wu
• [BioC] Using eBayes to find P values for individual contrasts   Jason Shoemaker
• [BioC] Using eBayes to find P values for individual contrasts   Mark Cowley
• [BioC] Group millions of the same DNA sequences?   Stijn van Dongen
• [BioC] Group millions of the same DNA sequences?   km
• [BioC] Using eBayes to find P values for individual contrasts   Mark Cowley
• [BioC] Using eBayes to find P values for individual contrasts   Sean Davis
• [BioC] oneChannelGUI   Marcos Pinho
• [BioC] oneChannelGUI   Richard Friedman
• [BioC] How to export dataframes to xls   pankaj borah
• [BioC] totalTest number in ChipPeakAnno   Binbin Liu
• [BioC] beadarray locs files   Alex Gutteridge
• [BioC] How to export dataframes to xls   Achilleas Pitsillides
• [BioC] oneChannelGUI   Marcos Pinho
• [BioC] oneChannelGUI   Richard Friedman
• [BioC] oneChannelGUI   Marcos Pinho
• [BioC] oneChannelGUI   Richard Friedman
• [BioC] oneChannelGUI   Dan Tenenbaum
• [BioC] oneChannelGUI   Richard Friedman
• [BioC] how to find the VALIDATED pair (miRNA, gene-3'UTR-sequence)   kris richardson
• [BioC] Using eBayes to find P values for individual contrasts   Jenny Drnevich
• [BioC] Using eBayes to find P values for individual contrasts   Jason Shoemaker
• [BioC] arrayQualityMetrics bug   Lavinia Gordon
• [BioC] arrayQualityMetrics bug   Dan Tenenbaum
• [BioC] arrayQualityMetrics bug   Lavinia Gordon
• [BioC] How to export dataframes to xls   Markus Boenn
• [BioC] remapping probes   Swapna Menon
• [BioC] creating GO and KEGG gene set collections for E. coli   Clémentine Dressaire
• [BioC] Question about clustering and cluster validation   January Weiner
• [BioC] Question about clustering and cluster validation   Robert Chapman
• [BioC] remapping probes   Steve Lianoglou
• [BioC] Question about clustering and cluster validation   January Weiner
• [BioC] totalTest number in ChipPeakAnno   Zhu, Lihua (Julie)
• [BioC] oneChannelGUI   rcaloger
• [BioC] limma- nee help for a paired design with multiple factors   Huang, Tinghua [AN S]
• [BioC] how to find the VALIDATED pair (miRNA, gene-3'UTR-sequence)   Sean Davis
• [BioC] Writing table from DGEExact object (edgeR)   Karen Sherwood
• [BioC] Question about clustering and cluster validation   Tim Triche
• [BioC] question on "uniCox"   Shi, Tao
• [BioC] question on "uniCox"   Vincent Carey
• [BioC] affyQCReport with drosgenome2cdf   Wolfgang Huber
• [BioC] question on "uniCox"   Shi, Tao
• [BioC] gene expression set using KEGG   Peevi Ijkl
• [BioC] gene expression set using KEGG   Martin Morgan
• [BioC] Help for model.matrix() in microarray analysis   Valerie Obenchain
• [BioC] nsFilter   Peevi Ijkl
• [BioC] Ensembl mart release 60: Useful information   Rhoda Kinsella
• [BioC] RE : designing an eSet derived object   Wolfgang RAFFELSBERGER
• [BioC] nsFilter   Vincent Carey
• [BioC] Write ExpressionSetIllumina to a file   Moritz Kebschull
• [BioC] poor precision of matrix inverse?   zack liu
• [BioC] poor precision of matrix inverse?   Misha Kapushesky
• [BioC] poor precision of matrix inverse?   Markus Boenn
• [BioC] Write ExpressionSetIllumina to a file   Mike Smith
• [BioC] How to export dataframes to xls   Tim Triche
• [BioC] Writing table from DGEExact object (edgeR)   Mark Robinson
• [BioC] RE : designing an eSet derived object   Martin Morgan
• [BioC] poor precision of matrix inverse?   Achilleas Pitsillides
• [BioC] Package xps   Marcos Pinho
• [BioC] Package xps - Problem accessing README file   cstrato
• [BioC] Package xps - Problem accessing README file   Henrik Bengtsson
• [BioC] Results of QC of Demodata included in the package HumMeth27QCReport   gregory voisin
• [BioC] Package xps - Problem accessing README file   Dan Tenenbaum
• [BioC] beadarray, bash, hulk, excludeBrihtBeadNeighbors, et al -- how to use practically?   Anand Patel
• [BioC] Package xps - Problem accessing README file   Dan Tenenbaum
• [BioC] sva package   S T
• [BioC] How to export dataframes to xls   January Weiner
• [BioC] sva package   Sean Davis
• [BioC] sva package   S T
• [BioC] sva package   Sean Davis
• [BioC] sva package   Kasper Daniel Hansen
• [BioC] Results of QC of Demodata included in the package HumMeth27QCReport   Valerie Obenchain
• [BioC] Pairwise Comparison error   Lakshmi Kastury
• [BioC] Pairwise Comparison error   James W. MacDonald
• [BioC] Package xps - Problem accessing README file   cstrato
• [BioC] Illumina data analysis using lumi   Pan Du
• [BioC] Package xps - Problem accessing README file   Kasper Daniel Hansen
• [BioC] Package xps - Problem accessing README file   Henrik Bengtsson
• [BioC] [libsvm] predict function error   zhliu.tju
• [BioC] RecoveryScore method in GeneSelector missing   Mark Cowley
• [BioC] Transfer Fasta to Fastq   Bin Ma
• [BioC] Results of QC of Demodata included in the package, HumMeth27QCReport   Francesco Mancuso
• [BioC] RMA: Affy MoEx and background correction   Peter Saffrey
• [BioC] Transfer Fasta to Fastq   Chris Fields
• [BioC] RE : designing an eSet derived object   Wolfgang RAFFELSBERGER
• [BioC] Transfer Fasta to Fastq   Michael Dondrup
• [BioC] IRanges: RangedData rbind error   Jonathan Cairns
• [BioC] Transfer Fasta to Fastq   Michael Lawrence
• [BioC] Transfer Fasta to Fastq   Chris Fields
• [BioC] Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Manca Marco (PATH)
• [BioC] Transfer Fasta to Fastq   Martin Morgan
• [BioC] Transfer Fasta to Fastq   Michael Dondrup
• [BioC] Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   J.Oosting at lumc.nl
• [BioC] R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Manca Marco (PATH)
• [BioC] R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Ina Hoeschele
• [BioC] Transfer Fasta to Fastq   Michael Lawrence
• [BioC] R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Sean Davis
• [BioC] RMA: Affy MoEx and background correction   Benilton Carvalho
• [BioC] R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Manca Marco (PATH)
• [BioC] R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Sean Davis
• [BioC] R: R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Manca Marco (PATH)
• [BioC] R: R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Ina Hoeschele
• [BioC] R: R: R: Illumina human ht12 v3 beadchip and illuminaHumanv3BeadID.db   Manca Marco (PATH)
• [BioC] IRanges: RangedData rbind error   Michael Lawrence
• [BioC] Can not install 'affyio' with compiler icc on redhat linux ES5   Zhenguo Zhang
• [BioC] CORNA and biomaRt packages. miRNA and mRNA expression comparation   Jordi Altirriba
• [BioC] R: CORNA and biomaRt packages. miRNA and mRNA expression comparation   Manca Marco (PATH)
• [BioC] RMA median Polish in Oligo package   Michael MOZAR
• [BioC] RMA median Polish in Oligo package   Benilton Carvalho
• [BioC] R: CORNA and biomaRt packages. miRNA and mRNA expression comparation   Martin Morgan
• [BioC] IRanges   Hervé Pagès
• [BioC] RE : designing an eSet derived object   Martin Morgan
• [BioC] How to create KEGG's pathway data for SPIA?   Lourdes Peña Castillo
• [BioC] R: CORNA and biomaRt packages. miRNA and mRNA expression comparation   Jordi Altirriba
• [BioC] Biological and Technical replicates   Marcos Pinho
• [BioC] Limma - avereps - problems with NA   Gildas Le Corguillé
• [BioC] KEGGgraph and Rgraphviz for win 64   Yan Jiao
• [BioC] obtain a list of possible oncogenes from the annotation packages?   Paul Shannon
• [BioC] Bioconductor Digest, Vol 93, Issue 26: How to create KEGG's pathway data for SPIA?   Tarca, Adi
• [BioC] Results of QC of Demodata included in the package HumMeth27QCReport   Valerie Obenchain
• [BioC] obtain a list of possible oncogenes from the annotation packages?   Steve Lianoglou
• [BioC] R: Bioconductor Digest, Vol 93, Issue 27   claudio.isella at ircc.it
• [BioC] obtain a list of possible oncogenes from the annotation packages?   Paul Shannon
• [BioC] EdgeR - problems running estimateCRDisp   Gordon K Smyth
• [BioC] CORNA and biomaRt packages. miRNA and mRNA expression comparation   James MacDonald
• [BioC] EdgeR - problems running estimateCRDisp   josquin.tibbits at dpi.vic.gov.au
• [BioC] Flanking TSS region for reverse strand using biomaRt   Kishor Tappita
• [BioC] pdInfobuilder - building custom cdf   Ania Lorenc
• [BioC] (no subject)   Yan Jiao
• [BioC] (no subject)   Jitao David Zhang
• [BioC] [R] Problems in running affylmGUI   James W. MacDonald
• [BioC] Issues running affylmGUI   Lorenzo Melchor
• [BioC] (no subject)   Yan Jiao
• [BioC] KEGGgraph help   Yan Jiao
• [BioC] KEGGgraph help   Jitao David Zhang
• [BioC] KEGGgraph help   Yan Jiao
• [BioC] KEGGgraph help   Jitao David Zhang
• [BioC] KEGGgraph help   Yan Jiao
• [BioC] KEGGgraph help   Martin Morgan
• [BioC] KEGGgraph help   Jitao David Zhang
• [BioC] graph::join discards node and edge attributes   Paul Shannon
• [BioC] Course: Intro to R / Bioc, December 9-10   Martin Morgan
• [BioC] Illumina CanineHD CNV & crlmm?   Dykema, Karl
• [BioC] quick question about romer results   Iain Gallagher
• [BioC] obtain a list of possible oncogenes from the annotation, packages?   aedin culhane
• [BioC] Can not install 'affyio' with compiler icc on redhat linux ES5   Dan Tenenbaum
• [BioC] pdInfobuilder - building custom cdf   Benilton Carvalho
• [BioC] Mapping genomic coordinates to transcript coordinates?   Hollis Wright
• [BioC] Mapping genomic coordinates to transcript coordinates?   Michael Lawrence
• [BioC] Mapping genomic coordinates to transcript coordinates?   Hollis Wright
• [BioC] Mapping genomic coordinates to transcript coordinates?   Marc Carlson
• [BioC] quick question about romer results   Di Wu
• [BioC] Mapping genomic coordinates to transcript coordinates?   Michael Lawrence
• [BioC] Can not install 'affyio' with compiler icc on redhatlinux ES5   Ben Bolstad
• [BioC] seqselect and window in GRanges   arne.mueller at novartis.com
• [BioC] Mapping genomic coordinates to transcript coordinates?   Aaron Mackey
• [BioC] seqselect and window in GRanges   Martin Morgan
• [BioC] quick question about romer results   Iain Gallagher
• [BioC] Mapping genomic coordinates to transcript coordinates?   Michael Lawrence
• [BioC] seqselect and window in GRanges   arne.mueller at novartis.com
• [BioC] seqselect and window in GRanges   Michael Lawrence
• [BioC] EBImage installs but won't load on Mac OS 10.6.4   W. A. Green
• [BioC] quick question about romer results   Iain Gallagher
• [BioC] Calculating average expression value in limma topTable output   Michael Muratet
• [BioC] EBImage installs but won't load on Mac OS 10.6.4   Gregoire Pau
• [BioC] obtain a list of possible oncogenes from the annotation packages?   James F. Reid

Last message date: Tue Nov 30 23:16:52 CET 2010
Archived on: Wed Dec 1 19:11:17 CET 2010

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