May 2011 Archives by date

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Starting: Sun May 1 01:53:25 CEST 2011
Ending: Tue May 31 20:35:12 CEST 2011
Messages: 478

• [BioC] problems with estimateGLMTrendedDisp()   Gordon K Smyth
• [BioC] getGEO for very large files   Sean Davis
• [BioC] RNASeq: normalization issues   ywchen at jimmy.harvard.edu
• [BioC] RNASeq: normalization issues   Wolfgang Huber
• [BioC] problems with Affymetrix probes id using exonmap and xmapcore   Tim Yates
• [BioC] problems with Affymetrix probes id using exonmap and xmapcore   Tim Yates
• [BioC] R crash when using xps package   Xi Chen
• [BioC] RNASeq: normalization issues   ywchen at jimmy.harvard.edu
• [BioC] Error in installing packages from bioconductor using R version 2.13.0 on Windows 7   gabriel teku
• [BioC] Error in installing packages from bioconductor using R version 2.13.0 on Windows 7   Dan Tenenbaum
• [BioC] RNASeq: normalization issues   Davis McCarthy
• [BioC] RNASeq: normalization issues   Wei Shi
• [BioC] RNASeq: normalization issues   ywchen at jimmy.harvard.edu
• [BioC] RNASeq: normalization issues   Wei Shi
• [BioC] RNASeq: normalization issues   ywchen at jimmy.harvard.edu
• [BioC] RNASeq: normalization issues   Alicia Oshlack
• [BioC] Help for GEOquery installation on window 7   Gaurav Kumar
• [BioC] Help for GEOquery installation on window 7   Sean Davis
• [BioC] 4-way venn diagram with ChIPpeakAnno   Zhu, Lihua (Julie)
• [BioC] R crash when using xps package   cstrato
• [BioC] 4-way venn diagram with ChIPpeakAnno   Flink, Stephen
• [BioC] UCSC: convert from hg18 to hg19 - rtracklayer?   Tim Smith
• [BioC] UCSC: convert from hg18 to hg19 - rtracklayer?   Sean Davis
• [BioC] UCSC: convert from hg18 to hg19 - rtracklayer?   Tim Smith
• [BioC] Combining data from different versions of Illumina HumanHT-12 v3   Gavin Koh
• [BioC] RNASeq: normalization issues   João Moura
• [BioC] UK Beginner bioconductor courses   Daniel Brewer
• [BioC] UK Beginner bioconductor courses   Manikhandan V A
• [BioC] UCSC: convert from hg18 to hg19 - rtracklayer?   Michael Lawrence
• [BioC] collapsing redundant probe sets of Affymetrix Chips   Amos Folarin
• [BioC] gene SOX6 in HT HG-U133A   Andreas Heider
• [BioC] gene SOX6 in HT HG-U133A   Jason Lu
• [BioC] gene SOX6 in HT HG-U133A   Jason Lu
• [BioC] gene SOX6 in HT HG-U133A   James F. Reid
• [BioC] gene SOX6 in HT HG-U133A   Marc Carlson
• [BioC] Ggallus BS genome package   Namyoung Jung
• [BioC] Combining data from different versions of Illumina HumanHT-12 v3   Wei Shi
• [BioC] Data Requst   Moein Lak
• [BioC] problems with Affymetrix probes id using exonmap and xmapcore   Gomez Moruno, Antonio
• [BioC] Combining data from different versions of Illumina HumanHT-12 v3   Gavin Koh
• [BioC] affy vignette examples   Omar Gutierrez Arenas
• [BioC] affy vignette examples   Vincent Carey
• [BioC] Reading Illumina files using Limma package   Rahul Maurya
• [BioC] Data Requst   Sean Davis
• [BioC] affy vignette examples   Omar Gutierrez Arenas
• [BioC] Failure loading "arrayQualityMetrics" package.   Omar Gutierrez Arenas
• [BioC] Failure loading "arrayQualityMetrics" package.   Dan Tenenbaum
• [BioC] Failure loading "arrayQualityMetrics" package.   Omar Gutierrez Arenas
• [BioC] Ggallus BS genome package   Sean MacEachern
• [BioC] problems with estimateGLMTrendedDisp()   Davis McCarthy
• [BioC] Combining data from different versions of Illumina HumanHT-12 v3   Wei Shi
• [BioC] problems with estimateGLMTrendedDisp()   Davis McCarthy
• [BioC] Problem using justGCRMA   Antonio Mendes
• [BioC] Combining data from different versions of Illumina HumanHT-12 v3   Gavin Koh
• [BioC] Problem using justGCRMA   Omar Gutierrez Arenas
• [BioC] PICS: vignette code outdated (use of GenomeData-object)   Samuel Wuest
• [BioC] Fast way to find which gene a snp located.   Fabrice Tourre
• [BioC] Fast way to find which gene a snp located.   Zhu, Lihua (Julie)
• [BioC] Problem using justGCRMA   James W. MacDonald
• [BioC] Problem using justGCRMA   James W. MacDonald
• [BioC] Data Requst   Laurent Gatto
• [BioC] Fast way to find which gene a snp located.   Michael Lawrence
• [BioC] Fast way to find which gene a snp located.   Michael Lawrence
• [BioC] Gene Lists and Genomes   Radhouane Aniba
• [BioC] new error: when running gage   Luo Weijun
• [BioC] Gene Lists and Genomes   Tim Triche, Jr.
• [BioC] Gene Lists and Genomes   Radhouane Aniba
• [BioC] Gene Lists and Genomes   Tim Triche, Jr.
• [BioC] Gene Lists and Genomes   Steve Lianoglou
• [BioC] Gene Lists and Genomes   Radhouane Aniba
• [BioC] Gene Lists and Genomes   Steve Lianoglou
• [BioC] Gene Lists and Genomes   Marc Carlson
• [BioC] BrainArray custom CDF repository missing in biocReposList()   M Behnke
• [BioC] BrainArray custom CDF repository missing in biocReposList()   James W. MacDonald
• [BioC] Having trouble with new brainarray CDF   M Behnke
• [BioC] Rgraphviz windows version incompatible with current Graphviz   Gregory D.Rodd
• [BioC] getSequence ensmebl biomaRt   Shi, Tao
• [BioC] Having trouble with new brainarray CDF   Marc Carlson
• [BioC] Rgraphviz windows version incompatible with current Graphviz   Martin Morgan
• [BioC] SAGE datasets   Tan, Yifang
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Jasreet
• [BioC] Combining data from different versions of Illumina HumanHT-12 v3   Wei Shi
• [BioC] Reading Illumina files using Limma package   Wei Shi
• [BioC] mapping a gene id to determine if it's ribosomal   Jon BR
• [BioC] mapping a gene id to determine if it's ribosomal   Shi, Tao
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Vincent Carey
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Sean Davis
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Jasreet
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Vincent Carey
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Jasreet
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Tim Triche, Jr.
• [BioC] [maSigPro] Splitting data - how?   Valerie Obenchain
• [BioC] Human Gene array data analysis workflow   Moshe Olshansky
• [BioC] R CMD check : biocLite warning   swaraj basu
• [BioC] RNASeq: normalization issues   Alicia Oshlack
• [BioC] R CMD check : biocLite warning   Vincent Carey
• [BioC] Gene Lists and Genomes   Radhouane Aniba
• [BioC] R CMD check : biocLite warning   Henrik Bengtsson
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Tim Triche, Jr.
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Jasreet
• [BioC] GOstats : KEGGHyperGParams error   Radhouane Aniba
• [BioC] Problem with BGandNorm() from the Agi4x44PreProcess package   Dick Beyer
• [BioC] IlluminaHumanMethylation27k.db crashes!!   Tim Triche, Jr.
• [BioC] GOstats : KEGGHyperGParams error   James W. MacDonald
• [BioC] Problem with BGandNorm() from the Agi4x44PreProcess package   Wolfgang Huber
• [BioC] IRanges: Request for a "step" argument in runsum   Arnaud Amzallag
• [BioC] calcNormFactors - normalization   Lana Schaffer
• [BioC] calcNormFactors - normalization   Mark Robinson
• [BioC] calcNormFactors - normalization   Lana Schaffer
• [BioC] calcNormFactors - normalization   Mark Robinson
• [BioC] calcNormFactors - normalization   Lana Schaffer
• [BioC] IRanges: Request for a "step" argument in runsum   Michael Lawrence
• [BioC] error coming when testing total no of possible clusters in k-means   Budhayash Gautam
• [BioC] How to Plot Top 100 Differential Gene Expression Values   Budhayash Gautam
• [BioC] calcNormFactors - normalization   Davis McCarthy
• [BioC] calcNormFactors - normalization   Lana Schaffer
• [BioC] (no subject)   Giulio Di Giovanni
• [BioC] calcNormFactors - normalization   Davis McCarthy
• [BioC] IRanges: Request for a "step" argument in runsum   Arnaud Amzallag
• [BioC] request for help   Pawan Kakchingtabam
• [BioC] Error in AnnotationDbi package - makeProbePackage   Helga Garcia
• [BioC] empty go terms with bioMart   chawla
• [BioC] miRNA target prediction algorithm setting used in RmiR.Hs.miRNA package.   Paul Geeleher
• [BioC] Error in FUN(c("AFFX-b-ActinMur/M12481_3_at", "AFFX-b-ActinMur/M12481_5_at", : , subscript out of bounds   pratibha.mani at geschickten.com
• [BioC] justPLIER output log scale   Andreas Heider
• [BioC] ChIP-Seq Normalization - Quantile (Rank) normalization   Henry Paik
• [BioC] justPLIER output log scale   Michal Okoniewski
• [BioC] Error in AnnotationDbi package - makeProbePackage   Kasper Daniel Hansen
• [BioC] Error in AnnotationDbi package - makeProbePackage   Helga Garcia
• [BioC] request for help   James W. MacDonald
• [BioC] ChIP-Seq Normalization - Quantile (Rank) normalization   Wei Shi
• [BioC] Regarding GEOqury   Reema Singh
• [BioC] Regarding GEOqury   Sean Davis
• [BioC] justPLIER output log scale   Andreas Heider
• [BioC] problem with rat database   Alberto Goldoni
• [BioC] problem with rat database   Vincent Carey
• [BioC] ChIP-Seq Normalization - Quantile (Rank) normalization   Alicia Oshlack
• [BioC] problem with rat database   Alberto Goldoni
• [BioC] problem with rat database   Sean Davis
• [BioC] problem with rat database   Alberto Goldoni
• [BioC] IRanges: Request for a "step" argument in runsum   Michael Lawrence
• [BioC] gcrma on affy xlaevis arrays   Tobias Straub
• [BioC] Define alternate design matrix in EdgeR   josquin.tibbits at dpi.vic.gov.au
• [BioC] ChIP-Seq Normalization - Quantile (Rank) normalization   Henry Paik
• [BioC] Methylation status using lumi   Richard Mc Eachin
• [BioC] problem with rat database   Marc Carlson
• [BioC] problem with rat database   Alberto Goldoni
• [BioC] ChIP-Seq Normalization - Quantile (Rank) normalization   Wei Shi
• [BioC] help request. repost Define alternate design matrix in R   josquin.tibbits at dpi.vic.gov.au
• [BioC] [Bioc-sig-seq] interaction factor in edgeR   Biase, Fernando
• [BioC] help request. repost Define alternate design matrix in R   Gordon K Smyth
• [BioC] [Bioc-sig-seq] interaction factor in edgeR   Gordon K Smyth
• [BioC] lumi: estimateMethylationBG problem   Pan Du
• [BioC] help request. repost Define alternate design matrix in R   josquin.tibbits at dpi.vic.gov.au
• [BioC] help request. repost Define alternate design matrix in R   Gordon K Smyth
• [BioC] methylumi problem with subsetting samples   Dario Greco
• [BioC] Job opening in Boston, USA   Wittner, Ben, Ph.D.
• [BioC] coefficient not estimable (limma warning)   Natasha
• [BioC] analysing NimbleGen MeDIP-chip data   Adeolu Adewoye
• [BioC] issue with graph package in using RBGL -‘'graph' is not a valid installed package’"   joe j
• [BioC] issue with graph package in using RBGL -‘'graph' is not a valid installed package’"   Dan Tenenbaum
• [BioC] RNA-Seq/edgeR reproducability between lanes   Lana Schaffer
• [BioC] gammaFitEM()   Richard C. McEachin
• [BioC] Problems Reading SNPs into snpMatrix   Chris K. Fuller
• [BioC] Problems Reading SNPs into snpMatrix   Vincent Carey
• [BioC] Heatmaps and correlation   john herbert
• [BioC] Fast way to find which gene a snp located.   hind
• [BioC] Heatmaps and correlation   Kevin R. Coombes
• [BioC] Heatmaps and correlation   john herbert
• [BioC] HTqPCR reading data   john herbert
• [BioC] [R] issue with graph package in using RBGL -‘'graph' is not a valid installed package’"   joe j
• [BioC] Methylation status using lumi   Tim Triche, Jr.
• [BioC] Heatmaps and correlation   john herbert
• [BioC] Heatmaps and correlation   john herbert
• [BioC] RNA-Seq/edgeR reproducability between lanes   Mark Robinson
• [BioC] coefficient not estimable (limma warning)   Moshe Olshansky
• [BioC] FW: RE: heat map   Reddy.Thumma at csiro.au
• [BioC] How to determine genes from BAM file and extract SNPs   Vincenzo Capece
• [BioC] How to determine genes from BAM file and extract SNPs   Sean Davis
• [BioC] survcomp: weighted concordance index   Benjamin Haibe-Kains
• [BioC] packege for presence of motifs or protein domains   Alberto Goldoni
• [BioC] Mouse/Human Affy Gene ST 1.0 arrays   somnath bandyopadhyay
• [BioC] conditions to apply BH correction   Loredana Le Pera
• [BioC] Average based on group   Fabrice Tourre
• [BioC] Average based on group   Daniel Brewer
• [BioC] Average based on group   Achilleas Pitsillides
• [BioC] Average based on group   Fabrice Tourre
• [BioC] Average based on group   Steve Lianoglou
• [BioC] conditions to apply BH correction   Pavel Goldstein
• [BioC] Average based on group   Steve Lianoglou
• [BioC] Average based on group   Fabrice Tourre
• [BioC] GO enrichement and Ensembl ID   Radhouane Aniba
• [BioC] Average based on group   Steve Lianoglou
• [BioC] Average based on group   Achilleas Pitsillides
• [BioC] Fast way to find which gene a snp located.   Sean Davis
• [BioC] Average based on group   Kevin R. Coombes
• [BioC] GO enrichement and Ensembl ID   mjonczyk at biol.uw.edu.pl
• [BioC] How to get defenitive Amp/del/nochange using DNAcopy package?   Chiho Kwon
• [BioC] [CHIPPEAKANNO] ANNOTATE_PEAK_IN_BATCH   Zhu, Lihua (Julie)
• [BioC] Average based on group   Moshe Olshansky
• [BioC] Average based on group   Michael Lawrence
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   john herbert
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   Richard Friedman
• [BioC] Any changes in Biomart regarding GO terms? Script crashing today   J.delasHeras at ed.ac.uk
• [BioC] why kOverA function has 6   wang peter
• [BioC] Any changes in Biomart regarding GO terms? Script crashing today   Steffen Durinck
• [BioC] Any changes in Biomart regarding GO terms? Script crashing today   rhoda at ebi.ac.uk
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   john herbert
• [BioC] Any changes in Biomart regarding GO terms? Script crashing today   J.delasHeras at ed.ac.uk
• [BioC] Any changes in Biomart regarding GO terms? Script crashing today   J.delasHeras at ed.ac.uk
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   Richard Friedman
• [BioC] reference manual   Naomi Altman
• [BioC] more on reference manual   Naomi Altman
• [BioC] coefficient not estimable (limma warning)   Naomi Altman
• [BioC] PICS: vignette code outdated (use of GenomeData-object)   Valerie Obenchain
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   Kevin R. Coombes
• [BioC] PICS: vignette code outdated (use of GenomeData-object)   Raphael Gottardo
• [BioC] How to filter a list of SNPs?   Simon Noël
• [BioC] How to filter a list of SNPs?   Steve Lianoglou
• [BioC] RE : How to filter a list of SNPs?   Simon Noël
• [BioC] RE : How to filter a list of SNPs?   Steve Lianoglou
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   john herbert
• [BioC] alternative to matchprobes   kloytyno at mappi.helsinki.fi
• [BioC] microRNA hg build?   Tim Smith
• [BioC] microRNA hg build?   Jinyan Huang
• [BioC] GO enrichement and Ensembl ID   Jarek Bryk
• [BioC] FW: RE: heat map   Wolfgang Huber
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   Mounts, William
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   Richard Friedman
• [BioC] Go terms attributes not available on Biomart ensembl   chawla
• [BioC] Human Exon array annotation problem.   Fabrice Tourre
• [BioC] Delta CT data distribution and cluster analyses; machine learning or other   Moshe Olshansky
• [BioC] Human Exon array annotation problem.   Michal Okoniewski
• [BioC] how to import xls file R   avinash gupta
• [BioC] LambdaSets converting the results into a data.frame   joe j
• [BioC] bitmap() extremely slow!   Groot, Philip de
• [BioC] about limma linear models   江刚
• [BioC] how to import xls file R   Steve Lianoglou
• [BioC] Error loading ShortRead   rcaloger
• [BioC] LambdaSets converting the results into a data.frame   Steve Lianoglou
• [BioC] Rif: Re: conditions to apply BH correction   loredana.lepera at uniroma1.it
• [BioC] LambdaSets converting the results into a data.frame   joe j
• [BioC] LaTeX - R CMD check   Zhu, Lihua (Julie)
• [BioC] Error loading ShortRead   Martin Morgan
• [BioC] how to import xls file R   Kevin R. Coombes
• [BioC] LambdaSets converting the results into a data.frame   Steve Lianoglou
• [BioC] microRNA hg build?   Marc Carlson
• [BioC] microRNA hg build?   Jinyan Huang
• [BioC] Error loading ShortRead   rcaloger
• [BioC] about limma linear models   Naomi Altman
• [BioC] LaTeX - R CMD check   Zhu, Lihua (Julie)
• [BioC] [Fwd: help in annotation ILLUMINA probes]   Nathalie Conte
• [BioC] [Fwd: help in annotation ILLUMINA probes]   Mete Civelek
• [BioC] HTqPCR reading data   Heidi Dvinge
• [BioC] LambdaSets converting the results into a data.frame   joe j
• [BioC] Ggallus BS genome package   Namyoung Jung
• [BioC] Ggallus BS genome package   Sean MacEachern
• [BioC] SSOAP functions   Michael Gormley
• [BioC] why kOverA function has 6   Gang Chen
• [BioC] about limma linear models   江刚
• [BioC] FYI: Plea to Support KEGG   Diego Diez
• [BioC] Go terms attributes not available on Biomart ensembl   Wolfgang Huber
• [BioC] [Fwd: help in annotation ILLUMINA probes]   Mark Dunning
• [BioC] connecting to ensembl   Stefan Kroeger
• [BioC] Go terms attributes not available on Biomart ensembl   Steve Lianoglou
• [BioC] Problems loading EBImage-package in R   Peter Mueller
• [BioC] microRNA hg build?   Marc Carlson
• [BioC] microRNA hg build?   Jinyan Huang
• [BioC] arrayQualityMetrics for Affymetrix miRNA chip   somnath bandyopadhyay
• [BioC] about limma linear models   Gordon K Smyth
• [BioC] connecting to ensembl   Hervé Pagès
• [BioC] Ggallus BS genome package   Hervé Pagès
• [BioC] alternative to matchprobes   Hervé Pagès
• [BioC] extract intensity values from AffyBatch   Assa Yeroslaviz
• [BioC] extract intensity values from AffyBatch   Saurabh Bundela
• [BioC] extract intensity values from AffyBatch   Assa Yeroslaviz
• [BioC] extract intensity values from AffyBatch   Saurabh Bundela
• [BioC] getEnrichedGo in ChIPPeakAnno Error   Gillian Bob
• [BioC] extract intensity values from AffyBatch   Paul Geeleher
• [BioC] Go terms attributes not available on Biomart, ensembl   chawla
• [BioC] microRNA hg build?   James F. Reid
• [BioC] microRNA hg build?   James F. Reid
• [BioC] Query Gene Ontology   LEMAITRE Hervé Université Paris Sud
• [BioC] getEnrichedGo in ChIPPeakAnno Error   Zhu, Lihua (Julie)
• [BioC] extract intensity values from AffyBatch   James W. MacDonald
• [BioC] [Fwd: Problem with DNAcopy plot function ??]   Nathalie Conte
• [BioC] connecting to ensembl   Straubhaar, Juerg
• [BioC] Tumor and Normal samples copy number estimation with CRLMM   Sole Acha, Xavi
• [BioC] DESeq: Error: attempt to apply non-function   João Barbosa
• [BioC] getEnrichedGo in ChIPPeakAnno Error   Gillian Bob
• [BioC] ConsensusClusterPlus updated to 1.5.1   Matt Wilkerson
• [BioC] call for BioC2011 posters   Valerie Obenchain
• [BioC] Empty featureData in ExpressionSet generated by affy::justRMA   David Shih
• [BioC] Query Gene Ontology   James W. MacDonald
• [BioC] raw counts for edgeR   Lana Schaffer
• [BioC] raw counts for edgeR   Sean Davis
• [BioC] Empty featureData in ExpressionSet generated by affy::justRMA   James W. MacDonald
• [BioC] Empty featureData in ExpressionSet generated by affy::justRMA   David Shih
• [BioC] lumi: estimateMethylationBG problem   Ina Hoeschele
• [BioC] connecting to ensembl   Hervé Pagès
• [BioC] [Fwd: Problem with DNAcopy plot function ??]   nac
• [BioC] Query Gene Ontology   Marc Carlson
• [BioC] lumi: estimateMethylationBG problem   Pan Du
• [BioC] lumi on 450K question   Pan Du
• [BioC] about limma linear models   江刚
• [BioC] about limma linear models   Gordon K Smyth
• [BioC] How to extract Phenotype data from GSE   Gaurav Kumar
• [BioC] How to extract Phenotype data from GSE   James F. Reid
• [BioC] understanding siggenes results   Assa Yeroslaviz
• [BioC] Chromosome: HSCHR17_1   Fabrice Tourre
• [BioC] understanding siggenes results   James W. MacDonald
• [BioC] Empty featureData in ExpressionSet generated by affy::justRMA   James W. MacDonald
• [BioC] Chromosome: HSCHR17_1   Steffen Durinck
• [BioC] [Fwd: Problem with DNAcopy plot function ??]   Wolfgang Huber
• [BioC] raw counts for edgeR   Wolfgang Huber
• [BioC] Query Gene Ontology   Wolfgang Huber
• [BioC] DESeq: Error: attempt to apply non-function   Wolfgang Huber
• [BioC] Eliminating Absent Data   Supriya Munshaw
• [BioC] BAM format?   Brezo, Jelena
• [BioC] Help with   Guillaume Meurice
• [BioC] Eliminating Absent Data   James W. MacDonald
• [BioC] Help with   Guillaume Meurice
• [BioC] biomart Ensembl Regulatory Build   Fabrice Tourre
• [BioC] Biomart server down?   Alistair Rust
• [BioC] Biomart server down?   Rhoda Kinsella
• [BioC] Biomart server down?   Fabrice Tourre
• [BioC] Biomart server down?   Rhoda Kinsella
• [BioC] Biomart server down?   Fabrice Tourre
• [BioC] Biomart server down?   Alistair Rust
• [BioC] Biomart server down?   Rhoda Kinsella
• [BioC] Biomart server down?   Rhoda Kinsella
• [BioC] Biomart server down?   Fabrice Tourre
• [BioC] Biomart server down?   Steffen Durinck
• [BioC] Empty featureData in ExpressionSet generated by affy::justRMA   David Shih
• [BioC] Biomart server down?   Fabrice Tourre
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Xiaohui Wu
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Simon Anders
• [BioC] How to quikly know whether two genes are in the same pathway or not?   Fabrice Tourre
• [BioC] How to quikly know whether two genes are in the same pathway or not?   Fabrice Tourre
• [BioC] How to quikly know whether two genes are in the same pathway or not?   James F. Reid
• [BioC] edgeR - multiple comparisions   Sridhara Gupta Kunjeti
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Wolfgang Huber
• [BioC] DESeq and paired samples - pairing vs pooling   Timothy Hughes
• [BioC] DESeq and paired samples - pairing vs pooling   Timothy Hughes
• [BioC] BAM format?   Martin Morgan
• [BioC] DESeq and paired samples - pairing vs pooling   Martin Morgan
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Martin Morgan
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Wolfgang Huber
• [BioC] Update to flowMerge   Greg Finak
• [BioC] Update to FlowMerge   Finak, Greg
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Biase, Fernando
• [BioC] limma analysis of 2-color experiment with tech reps [was: Help with]   Gordon K Smyth
• [BioC] Creating a graph showing Affy probe-set alignments along a small segment of chromosome   Richard Student
• [BioC] Creating a figure showing Affy probe-set alignments along a small segment of chromosome   Richard Student
• [BioC] Creating a figure showing Affy probe-set alignments along a small segment of chromosome   Vincent Carey
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Xiaohui Wu
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Xiaohui Wu
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Wolfgang Huber
• [BioC] edgeR - multiple comparisions   Mark Robinson
• [BioC] Update to flowMerge   Finak, Greg
• [BioC] edgeR - multiple comparisions   Sridhara Gupta Kunjeti
• [BioC] How to: design matrices for multi organism parts experiment   Hans
• [BioC] Creating a graph showing Affy probe-set alignments along a small segment of chromosome   Steve Lianoglou
• [BioC] Creating a figure showing Affy probe-set alignments along a small segment of chromosome   Sean Davis
• [BioC] edgeR - multiple comparisions   Mark Robinson
• [BioC] Ensembl mouse proteins   Stefanie Carola Gerstberger
• [BioC] Ensembl mouse proteins   Vincent Carey
• [BioC] limma analysis of 2-color experiment with tech reps [was: Help with]   Guillaume Meurice
• [BioC] Biomart server down?   Rhoda Kinsella
• [BioC] limma analysis of 2-color experiment with tech reps [was: Help with]   Gordon K Smyth
• [BioC] Ensembl mouse proteins   Vincent Carey
• [BioC] EdgeR- equal number of columns per group?   Lana Schaffer
• [BioC] lumi : Problems with the gammaFitEM() and lumiMethyStatus() functions.in lumi   NAIARA GARCÍA
• [BioC] EdgeR- equal number of columns per group?   Lana Schaffer
• [BioC] EdgeR- equal number of columns per group?   Davis McCarthy
• [BioC] question on the cutoff for limma package   Yi, Ming (NIH/NCI) [C]
• [BioC] Question about raw p-value function in oneChannelGUI   Guido Leoni
• [BioC] Get all 3'utr and 5'utr region from GenomicFeatures   Fabrice Tourre
• [BioC] Problems loading EBImage-package in R   Gregoire Pau
• [BioC] Get all 3'utr and 5'utr region from GenomicFeatures   James W. MacDonald
• [BioC] DESeq: Error: attempt to apply non-function   João Barbosa
• [BioC] Get all 3'utr and 5'utr region from GenomicFeatures   Steve Lianoglou
• [BioC] Get all 3'utr and 5'utr region from GenomicFeatures   Fabrice Tourre
• [BioC] Get all 3'utr and 5'utr region from GenomicFeatures   Steve Lianoglou
• [BioC] question on the cutoff for limma package   Sean Davis
• [BioC] question on the cutoff for limma package   Yi, Ming (NIH/NCI) [C]
• [BioC] quantile Normalization in Limma/Ringo using M-values directly?   Wlasiuk Battagliotti, Gabriela - (wlasiuk)
• [BioC] oligo read celfile   YBao
• [BioC] oligo read celfile   Benilton Carvalho
• [BioC] DESeq and paired samples - pairing vs pooling   Gordon K Smyth
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Gordon K Smyth
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Xiaohui Wu
• [BioC] Statistical Bioinformatics Position In Oxford   Stephen Taylor
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Gordon K Smyth
• [BioC] problem with rat database   Alberto Goldoni
• [BioC] rtracklayer gff import   Kathi Zarnack
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Xiaohui Wu
• [BioC] Biomart server down?   Fabrice Tourre
• [BioC] rtracklayer gff import   Michael Lawrence
• [BioC] how to map choromosome location to gene ID   Yan Jiao
• [BioC] arrayQualityMEtrics   Guillaume Meurice
• [BioC] problem with rat database   James W. MacDonald
• [BioC] IRanges: Request for a "step" argument in runsum   Arnaud Amzallag
• [BioC] rtracklayer - browserSession error   Tim Smith
• [BioC] how to map choromosome location to gene ID   Steffen Durinck
• [BioC] using Ringo and ACME package for NimbleGen MeDIP-chip data   Adeolu Adewoye
• [BioC] arrayQualityMEtrics   Wolfgang Huber
• [BioC] rtracklayer - browserSession error   Michael Lawrence
• [BioC] Evidence-based guidelines for use the method="robust" option in lmFit   Richard Friedman
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Wolfgang Huber
• [BioC] working with large dataframes in R   Elena Sorokin
• [BioC] edgeR - multiple comparisions   Sridhara Gupta Kunjeti
• [BioC] DESeq and paired samples - pairing vs pooling   Timothy Hughes
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Gordon K Smyth
• [BioC] DESeq and paired samples - pairing vs pooling   Gordon K Smyth
• [BioC] working with large dataframes in R   Robert Baer
• [BioC] Filtering out tags with low counts in DESeq and EgdeR?   Xiaohui Wu
• [BioC] [Fwd: help in annotation ILLUMINA probes]   Dave Tang
• [BioC] [Fwd: help in annotation ILLUMINA probes]   Steve Lianoglou
• [BioC] [Fwd: help in annotation ILLUMINA probes]   Dave Tang
• [BioC] arrayQualityMEtrics   Guillaume Meurice
• [BioC] Chip version of Illumina HT 12 data [ lumi getChipInfo() method ]   Mamunur Rashid
• [BioC] coloring heatmap   Assa Yeroslaviz
• [BioC] paired sample LIMMA   elliott harrison
• [BioC] paired sample LIMMA   Achilleas Pitsillides
• [BioC] paired sample LIMMA   elliott harrison
• [BioC] CGHcall   Yan Jiao
• [BioC] CGHcall   Sean Davis
• [BioC] paired sample LIMMA   Achilleas Pitsillides
• [BioC] CGHcall   Achilleas Pitsillides
• [BioC] development version of R   Ina Hoeschele
• [BioC] development version of R   Kasper Daniel Hansen
• [BioC] development version of R   David Henderson
• [BioC] Conversion of pfm to pwm using PWM()   Ravi Karra
• [BioC] edgeR - multiple comparisions   Davis McCarthy
• [BioC] Conversion of pfm to pwm using PWM()   Steve Lianoglou
• [BioC] image matching   avinash gupta
• [BioC] Conversion of pfm to pwm using PWM()   Hervé Pagès
• [BioC] image matching   Brandon Whitcher
• [BioC] edgeR - multiple comparisions   Sridhara Gupta Kunjeti
• [BioC] R package modreg   Ilya Lipkovich
• [BioC] Any package to calculate NGS coverage and plot it?   Xiaohui Wu
• [BioC] error message in edgeR   Sridhara Gupta Kunjeti
• [BioC] dendrograms on heatmap.2 (gplots)   Gavin Koh
• [BioC] error message in edgeR   Gordon K Smyth
• [BioC] Any package to calculate NGS coverage and plot it?   Steve Lianoglou
• [BioC] dendrograms on heatmap.2 (gplots)   Steve Lianoglou
• [BioC] dendrograms on heatmap.2 (gplots)   Gavin Koh
• [BioC] Any package to calculate NGS coverage and plot it?   Martin Morgan
• [BioC] dendrograms on heatmap.2 (gplots)   Steve Lianoglou
• [BioC] dendrograms on heatmap.2 (gplots)   Gavin Koh
• [BioC] dendrograms on heatmap.2 (gplots)   Gavin Koh
• [BioC] Any package to calculate NGS coverage and plot it?   Xiaohui Wu
• [BioC] RMA (affy) followed by SAM (samr)   Richard Student
• [BioC] edgeR - multiple comparisions   Davis McCarthy
• [BioC] image matching   Moshe Olshansky
• [BioC] help with Starr   YBao
• [BioC] help with Starr   Martin Morgan
• [BioC] maSigPro and "subscript out of bounds"   andrea.grilli at ior.it
• [BioC] RMA (affy) followed by SAM (samr)   Holger Schwender
• [BioC] question/issue with multtest mt.maxT   Les Dethlefsen
• [BioC] About the installation of ChIPsim   kelvin
• [BioC] heatmap without scaling the data   avehna
• [BioC] heatmap without scaling the data   avehna
• [BioC] Agilent Mouse annotation and using methods of AnnotationDbi   john herbert
• [BioC] CGHcall   Yan Jiao
• [BioC] Packages "clusterProfiler" and "illuminaHumanv4.db" not available for installation   Luke Pilling
• [BioC] log intensity plots with colours   john herbert
• [BioC] Log intensity plots with colours   john herbert
• [BioC] Log intensity plots with colours   Georg Summer
• [BioC] Fwd: Log intensity plots with colours   john herbert
• [BioC] log intensity plots with colours   Sean Davis
• [BioC] Packages "clusterProfiler" and "illuminaHumanv4.db" not available for installation   Steve Lianoglou
• [BioC] IRanges package: findOverlaps on blobs   Fahim Mohammad
• [BioC] IRanges package: findOverlaps on blobs   Steve Lianoglou
• [BioC] IRanges package: findOverlaps on blobs   Fahim Mohammad
• [BioC] Agilent Mouse annotation and using methods of AnnotationDbi   Marc Carlson
• [BioC] edgeR - multiple comparisions   Sridhara Gupta Kunjeti

Last message date: Tue May 31 20:35:12 CEST 2011
Archived on: Wed Jun 1 19:00:29 CEST 2011

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