June 2011 Archives by author

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Starting: Wed Jun 1 01:26:37 CEST 2011
Ending: Thu Jun 30 22:12:29 CEST 2011
Messages: 461

• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   "Gläßer, Christine"
• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   "Gläßer, Christine"
• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   "Gläßer, Christine"
• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   "Gläßer, Christine"
• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   "Gläßer, Christine"
• [BioC] DAT files   Aleksandra ..
• [BioC] clustering of expression data   sanchita 0804
• [BioC] CALCULATION OF P VALUE   sanchita 0804
• [BioC] input file in limma package   sanchita 0804
• [BioC] DESeq - fitNbinomGLMs - Error: NA/NaN/Inf in foreign function call   ALok
• [BioC] Comparing Two Affymetrix Arrays Question   Abboud, Ramzi
• [BioC] Comparing Two Affymetrix Arrays Question   Abboud, Ramzi
• [BioC] Subject: Re: Comparing Two Affymetrix Arrays Question   Abboud, Ramzi
• [BioC] Comparing Two Affymetrix Arrays Question   Abboud, Ramzi
• [BioC] question about the read.columns   Cei Abreu-Goodger
• [BioC] biocLite and limma   Naomi Altman
• [BioC] negative correlation?   Naomi Altman
• [BioC] negative correlation?   Naomi Altman
• [BioC] rtracklayer Rle to bigWig (export.bw ?)   Arnaud Amzallag
• [BioC] rtracklayer Rle to bigWig (export.bw ?)   Arnaud Amzallag
• [BioC] DESeq -padj   Simon Anders
• [BioC] Grouping data in a heatmap   Mark Aquino
• [BioC] dealing with negative values in illumina   Arno, Matthew
• [BioC] PreFiltering probe in microarray analysis   Arno, Matthew
• [BioC] PreFiltering probe in microarray analysis   Arno, Matthew
• [BioC] Pre-filtering and the gene universe of gene set tests in microarray analysis   Arno, Matthew
• [BioC] PreFiltering probe in microarray analysis   Arno, Matthew
• [BioC] rsbml installer cannot find ParseMessage.h from libsbml   Jie Bao
• [BioC] How can I read a WIGGLE file into R   Yanchun Bao
• [BioC] meet problem when use rtracklayer   Yanchun Bao
• [BioC] TF database   João Barbosa
• [BioC] pdmClass plot error   Dick Beyer
• [BioC] Biostats/Bioinformatics job University of Washington   Dick Beyer
• [BioC] Questions on doing EdgeR Analysis of Timeseries Data   Biase, Fernando
• [BioC] Simple, free way to read & assemble ABI sequence data in batch mode?   David Borhani
• [BioC] heat maps   Brinsmade, Shaun R.
• [BioC] About the installation of ChIPsim   Vincent Carey
• [BioC] bug info   Vincent Carey
• [BioC] meet problem when use rtracklayer   Vincent Carey
• [BioC] convert GGtools object (generated by vcf2sm) to snpMatrix class or other class   Vincent Carey
• [BioC] bug report/repair in vcf2sm of GGtools   Vincent Carey
• [BioC] snpMatrix trouble with read.HapMap.data() and ld.snp()   Vincent Carey
• [BioC] A circular problem: re-annotation of custom PM only probes   Marc Carlson
• [BioC] An error in oligo: All the CEL files must be of the same type??   Benilton Carvalho
• [BioC] fold change after gcrma()   Benilton Carvalho
• [BioC] An error in oligo: All the CEL files must be of the same type??   Benilton Carvalho
• [BioC] An error in oligo: All the CEL files must be of the same type??   Benilton Carvalho
• [BioC] rma vs. call.exprs   Benilton Carvalho
• [BioC] Limma and spot-specific dye effects for an environmental microarray   Ross Chapman
• [BioC] Limma and spot-specific dye effects for an environmental microarray   Ross Chapman
• [BioC] frma vectors for mouse 430 2.0   Ariel Chernomoretz
• [BioC] frma vectors for mouse 430 2.0   Ariel Chernomoretz
• [BioC] ALL package license   Pierre-Yves Chibon
• [BioC] ALL package license   Pierre-Yves Chibon
• [BioC] getSeq on a GRangesList   Michael Cho
• [BioC] snpMatrix trouble with read.HapMap.data() and ld.snp()   David Clayton
• [BioC] cluster genes based on expression pattern   Djork-Arné Clevert
• [BioC] Affymetrix Gene Chip Normalization   Djork-Arné Clevert
• [BioC] Selecting genes for machine learning   Djork-Arné Clevert
• [BioC] biomaRt package: problem with useDataset() function   Coghlan, Avril
• [BioC] limma design for tech and biol replicate (1 color design)   Florence Combes
• [BioC] limma design for tech and biol replicate (1 color design)   Florence Combes
• [BioC] DNA copy ploting function   Nathalie Conte
• [BioC] cghArray analysis plotting :need help please   Nathalie Conte
• [BioC] illumina beadarray GEO files   Nathalie Conte
• [BioC] Limma : post statistical gene filtering   Kevin R. Coombes
• [BioC] PreFiltering probe in microarray analysis   Kevin R. Coombes
• [BioC] Classification   Kevin R. Coombes
• [BioC] Classification   Kevin R. Coombes
• [BioC] Classification   Kevin R. Coombes
• [BioC] cosine similarity   Kevin R. Coombes
• [BioC] readQpcrBatch()   John Coulthard
• [BioC] Problems creating a qPCRset object in "HTqPCR"   Peter Davidsen
• [BioC] Lumi methylation analysis errors in lmFit   Sean Davis
• [BioC] Lumi methylation analysis errors in lmFit   Sean Davis
• [BioC] Lumi methylation analysis errors in lmFit   Sean Davis
• [BioC] Lumi methylation analysis errors in lmFit   Sean Davis
• [BioC] Regarding GEOquery   Sean Davis
• [BioC] DNAcopy   Sean Davis
• [BioC] TF database   Sean Davis
• [BioC] PreFiltering probe in microarray analysis   Sean Davis
• [BioC] analyse GSM files form GEO repository   Sean Davis
• [BioC] help with ACME package   Sean Davis
• [BioC] help with ACME package   Sean Davis
• [BioC] how to find kinases and their phosphorylating target   Sean Davis
• [BioC] cluster genes based on expression pattern   Sean Davis
• [BioC] Limma : post statistical gene filtering   Sean Davis
• [BioC] Limma : post statistical gene filtering   Sean Davis
• [BioC] Limma : post statistical gene filtering   Sean Davis
• [BioC] memory problem   Sean Davis
• [BioC] memory problem   Sean Davis
• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   Sean Davis
• [BioC] Working with Agilent 4X44k array,two color experiment   Sean Davis
• [BioC] Working with Agilent 4X44k array,two color experiment   Sean Davis
• [BioC] scale and quantile normalization methods in limma   Sean Davis
• [BioC] Classification   Sean Davis
• [BioC] scale and quantile normalization methods in limma   Sean Davis
• [BioC] scale and quantile normalization methods in limma   Sean Davis
• [BioC] Selecting genes for machine learning   Sean Davis
• [BioC] RdbiPgSQL regex escape   Sean Davis
• [BioC] cosine similarity   Sean Davis
• [BioC] R crashes with GEOmetadb   Sean Davis
• [BioC] R crashes with GEOmetadb   Sean Davis
• [BioC] R crashes with GEOmetadb   Sean Davis
• [BioC] Installation of Bioconductor packages   Robert DeLisle
• [BioC] question about mt.maxT output (multtest)   Les Dethlefsen
• [BioC] cluster genes based on expression pattern   Stijn van Dongen
• [BioC] flowQ library loading error   René Dreos
• [BioC] analysis of reference design with even dye-swap across biological replicates   Jenny Drnevich
• [BioC] analysis of reference design with even dye-swap across biological replicates   Jenny Drnevich
• [BioC] Comparing Two Affymetrix Arrays Question   Jenny Drnevich
• [BioC] Comparing Two Affymetrix Arrays Question   Jenny Drnevich
• [BioC] Comparing Two Affymetrix Arrays Question   Jenny Drnevich
• [BioC] 2 way anova in Bioconductor   Jenny Drnevich
• [BioC] sequential removeBatchEffect()?   Jenny Drnevich
• [BioC] sequential removeBatchEffect()?   Jenny Drnevich
• [BioC] 2 way anova in Bioconductor   Jenny Drnevich
• [BioC] question about the read.columns   Changbin Du
• [BioC] question about the read.columns   Changbin Du
• [BioC] question about the read.columns   Changbin Du
• [BioC] lumi and plotHousekeepingGene   Pan Du
• [BioC] lumi and plotHousekeepingGene   Pan Du
• [BioC] lumi, Illumina Methylation 450k, and robust methylation calls   Pan Du
• [BioC] lumi, Illumina Methylation 450k, and robust methylation calls   Pan Du
• [BioC] Rgraphviz plot of bnlearn object with text too big   João Daniel Nunes Duarte
• [BioC] illumina beadarray GEO files   Mark Dunning
• [BioC] biomaRt- too many attributes selected   Steffen Durinck
• [BioC] biomaRt: using a list as values. confused...   Steffen Durinck
• [BioC] biomaRt: using a list as values. confused...   Steffen Durinck
• [BioC] about HTqPCR   Heidi Dvinge
• [BioC] colors in plotCtCategory heatmap   Heidi Dvinge
• [BioC] about HTqPCR   Heidi Dvinge
• [BioC] HTqPCR   Heidi Dvinge
• [BioC] Use of individual channel from a 2-color array as a measure of expression level?   Hari Easwaran
• [BioC] Use of individual channel from a 2-color array as a measure of expression level?   Hari Easwaran
• [BioC] Use of individual channel from a 2-color array as a measure of expression level?   Hari Easwaran
• [BioC] TF database   Ed
• [BioC] TF database   Ed
• [BioC] TF database   Ed
• [BioC] TF database   Ed
• [BioC] TF database   Ed
• [BioC] TF database   Ed
• [BioC] TF database   Ed
• [BioC] how to find kinases and their phosphorylating target   Ed
• [BioC] how to find kinases and their phosphorylating target   Ed
• [BioC] TF database   Mercier Eloi
• [BioC] HTqPCR   Marco Fabbri
• [BioC] DESeq - fitNbinomGLMs - Error: NA/NaN/Inf in foreign function call   Filippis, Ioannis
• [BioC] [R] help required for GO Annotation problem   Iain Gallagher
• [BioC] How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray   Virginia Garcia
• [BioC] edgeR: Identifying genes up regulated in one of multiple samples, and those stable across samples   Dennis Gascoigne
• [BioC] Re-annotation of probes for an Affy custom microarray   Laurent Gautier
• [BioC] cause 'memory not mapped'   Paul Geeleher
• [BioC] Sliding window t-test?   Julian Gehring
• [BioC] info on vennCounts function   Alberto Goldoni
• [BioC] converting data matrix to Affybatch object   Pavel Goldstein
• [BioC] converting data matrix to Affybatch object   Pavel Goldstein
• [BioC] biomaRt- too many attributes selected   Lavinia Gordon
• [BioC] biomaRt- too many attributes selected   Lavinia Gordon
• [BioC] MA plots for single channel agilent array data, plotMA3by2 and atomic vectors issue   Richard Green
• [BioC] how to make an MA plot with single color agilent microarray?   Richard Green
• [BioC] creating an MA plot with two single channel agilent arrays   Richard Green
• [BioC] creating an MA plot with two single channel agilent arrays   Richard Green
• [BioC] creating an MA plot with two single channel agilent arrays   Richard Green
• [BioC] Re-annotation of probes for an Affy custom microarray   Ariel Grostern
• [BioC] A circular problem: re-annotation of custom PM only probes   Ariel Grostern
• [BioC] Follow-up: AnnotationDbi and makeProbePackage for PM-only Affy chips   Ariel Grostern
• [BioC] Converting makeProbePackage in AnnotationDbi to permit PM-only arrays   Ariel Grostern
• [BioC] AnnotationDbi:makeProbePackage for PM-only chips....getting closer.....now error in installation of probe package   Ariel Grostern
• [BioC] AnnotationDbi:makeProbePackage for PM-only chips....getting closer.....now error in installation of probe package   Ariel Grostern
• [BioC] altcdfenvs: mapping probes and creating new probe sets: guidance requested   Ariel Grostern
• [BioC] Resend: altcdfenvs: mapping probes and creating new probe sets: guidance requested   Ariel Grostern
• [BioC] Detection p value cut off   Hajja
• [BioC] Detection p value cut off   Hajja
• [BioC] PreFiltering probe in microarray analysis   Yuan Hao
• [BioC] "leading minor...is not positive definite" in flowStats warpSet() function   Hill, Andrew
• [BioC] Lumi methylation analysis errors in lmFit   Ina Hoeschele
• [BioC] lumi, Illumina Methylation 450k, and robust methylation calls   Ina Hoeschele
• [BioC] lumi, Illumina Methylation 450k, and robust methylation calls   Ina Hoeschele
• [BioC] memory problem   Ina Hoeschele
• [BioC] memory problem   Ina Hoeschele
• [BioC] frma vectors for mouse 430 2.0   Hooiveld, Guido
• [BioC] R crashes with GEOmetadb   Hooiveld, Guido
• [BioC] R crashes with GEOmetadb   Hooiveld, Guido
• [BioC] R crashes with GEOmetadb   Hooiveld, Guido
• [BioC] biomaRt package: problem with useDataset() function   Hans-Rudolf Hotz
• [BioC] dealing with negative values in illumina   Wolfgang Huber
• [BioC] PreFiltering probe in microarray analysis   Wolfgang Huber
• [BioC] how to make an MA plot with single color agilent microarray?   Wolfgang Huber
• [BioC] Rgraphviz: Reproduce node layout from fdp   Gregory C Imholte
• [BioC] removing packages from the workspace - is this ok?   Harris A. Jaffee
• [BioC] using and combining of "subseq"   Harris A. Jaffee
• [BioC] Lumi methylation analysis errors in lmFit   Jasreet
• [BioC] Lumi methylation analysis errors in lmFit   Jasreet
• [BioC] Lumi methylation analysis errors in lmFit   Jasreet
• [BioC] Lumi methylation analysis errors in lmFit   Jasreet
• [BioC] Lumi methylation analysis errors in lmFit   Jasreet
• [BioC] convert GGtools object (generated by vcf2sm) to snpMatrix class or other class   Mao Jianfeng
• [BioC] DNAcopy   Yan Jiao
• [BioC] linear model and continous variable   Dimitris Kampas
• [BioC] biomaRt- too many attributes selected   Rhoda Kinsella
• [BioC] RdbiPgSQL regex escape   Håvard Wahl Kongsgård
• [BioC] range data aggregate error   Skirmantas Kriaucionis
• [BioC] edgeR - multiple comparisions   Sridhara Gupta Kunjeti
• [BioC] limma design and contrast matrices for two-color (two-channel) data with common biological reference, not common mRNA reference   Chris Lasher
• [BioC] How can I read a WIGGLE file into R   Michael Lawrence
• [BioC] rtracklayer error?   Michael Lawrence
• [BioC] range data aggregate error   Michael Lawrence
• [BioC] IRanges question!   Michael Lawrence
• [BioC] IRanges package: findOverlaps on blobs   Michael Lawrence
• [BioC] getSeq on a GRangesList   Michael Lawrence
• [BioC] rsbml installer cannot find ParseMessage.h from libsbml   Michael Lawrence
• [BioC] IRanges: Request for a "step" argument in runsum   Michael Lawrence
• [BioC] Questions on doing EdgeR Analysis of Timeseries Data   Lawson, Mark (mjl3p)
• [BioC] Pre-filtering and the gene universe of gene set tests in microarray analysis   François Lefebvre
• [BioC] DESeq -padj   Dawei Li
• [BioC] error LiWongRank in RNAither   Li, Ning (NIH/NIAID) [F]
• [BioC] error LiWongRank in RNAither   Li, Ning (NIH/NIAID) [F]
• [BioC] LIMMAing normalized and background corrected MA-data derived by a text file   Yong Li
• [BioC] Working with Agilent 4X44k array,two color experiment   Yong Li
• [BioC] DNAcopy dev version installation problem   Steve Lianoglou
• [BioC] Significance of variance   Steve Lianoglou
• [BioC] removing packages from the workspace - is this ok?   Steve Lianoglou
• [BioC] removing packages from the workspace - is this ok?   Steve Lianoglou
• [BioC] heat maps   Steve Lianoglou
• [BioC] flowQ library loading error   Steve Lianoglou
• [BioC] biobase   Steve Lianoglou
• [BioC] Retrieving a subset from normalized microarray data for   Steve Lianoglou
• [BioC] arrayQuality - maQualityPlots - Error: duplicate switch defaults: 'list(dev =...' and ''   Fabio Liberante
• [BioC] Regarding GEOquery   Fabio Liberante
• [BioC] Limma and spot-specific dye effects for an environmental microarray   Philip Lijnzaad
• [BioC] vennSelect error   James W. MacDonald
• [BioC] vennSelect error   James W. MacDonald
• [BioC] Error from aafGO using yeast2.db   James W. MacDonald
• [BioC] Limma; matrix of microarray data and design matrix   James W. MacDonald
• [BioC] vennSelect error   James W. MacDonald
• [BioC] Limma; matrix of microarray data and design matrix   James W. MacDonald
• [BioC] Use of individual channel from a 2-color array as a measure of expression level?   James W. MacDonald
• [BioC] DAT files   James W. MacDonald
• [BioC] converting data matrix to Affybatch object   James W. MacDonald
• [BioC] info on vennCounts function   James W. MacDonald
• [BioC] How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray   James W. MacDonald
• [BioC] Detection p value cut off   James W. MacDonald
• [BioC] AnnotationDbi:makeProbePackage for PM-only chips....getting closer.....now error in installation of probe package   James W. MacDonald
• [BioC] please remove my address from mailing list   James W. MacDonald
• [BioC] altcdfenvs: mapping probes and creating new probe sets: guidance requested   James W. MacDonald
• [BioC] biocLite and limma   James W. MacDonald
• [BioC] linear model and continous variable   James W. MacDonald
• [BioC] edgeR - multiple comparisions   Alyaa Mahmoud
• [BioC] BSgenome package - danRer7 genome assembly   Brett Maricque
• [BioC] frma vectors for mouse 430 2.0   Matthew McCall
• [BioC] edgeR - multiple comparisions   Davis McCarthy
• [BioC] edgeR - multiple comparisions   Davis McCarthy
• [BioC] edgeR users update to v2.2.5   Davis McCarthy
• [BioC] PreFiltering probe in microarray analysis   Swapna Menon
• [BioC] Subject: Re: Comparing Two Affymetrix Arrays Question   Swapna Menon
• [BioC] goseq - overrepresented p-values   Gu Mi
• [BioC] goseq - overrepresented p-values (Alicia Oshlack)   Gu Mi
• [BioC] Significance of variance   Nitish Kumar Mishra
• [BioC] Regarding GEOquery   Nitish Kumar Mishra
• [BioC] Calling R from php   Fahim Mohammad
• [BioC] DNAcopy dev version installation problem   Martin Morgan
• [BioC] cghArray analysis plotting :need help please   Martin Morgan
• [BioC] a bug in the function pamr.plotcen()   Martin Morgan
• [BioC] limit the number of rows in decideTests   Martin Morgan
• [BioC] CGHcall and Normalization   Martin Morgan
• [BioC] CGHcall and Normalization   Martin Morgan
• [BioC] Installation of Bioconductor packages   Martin Morgan
• [BioC] getSeq on a GRangesList   Martin Morgan
• [BioC] ALL package license   Martin Morgan
• [BioC] biobase   Martin Morgan
• [BioC] lumi, Illumina Methylation 450k, and robust methylation calls   Tiffany Morris
• [BioC] BLAST in R   Zoha Moztarzadeh
• [BioC] analysis of reference design with even dye-swap across biological replicates   Aubin-Horth Nadia
• [BioC] analysis of reference design with even dye-swap across biological replicates   Aubin-Horth Nadia
• [BioC] limma: multiple regression   Hong Nie
• [BioC] error LiWongRank in RNAither   Nora
• [BioC] Using pdInfoBuilder for Human Exon Array   Maria Rodrigo-Domingo / Region Nordjylland
• [BioC] Help with the weaver example from limma package   Marcus Nunes
• [BioC] Help with the weaver example from limma package   Marcus Nunes
• [BioC] maSigPro and "subscript out of bounds"   Valerie Obenchain
• [BioC] readQpcrBatch()   Valerie Obenchain
• [BioC] GenomicFeatures more detail.   Valerie Obenchain
• [BioC] merging two DNAStringsets   Valerie Obenchain
• [BioC] BioC2011 - registration reminder   Valerie Obenchain
• [BioC] question about the read.columns   Valerie Obenchain
• [BioC] question about the read.columns   Valerie Obenchain
• [BioC] Sliding window t-test?   Michal Okoniewski
• [BioC] mirna20.db   Juan Carlos Oliveros
• [BioC] bug info   Mathieu Olivier
• [BioC] "leading minor...is not positive definite" in flowStats warpSet() function   Moshe Olshansky
• [BioC] cluster genes based on expression pattern   Moshe Olshansky
• [BioC] PreFiltering probe in microarray analysis   Moshe Olshansky
• [BioC] cluster genes based on expression pattern   Moshe Olshansky
• [BioC] PreFiltering probe in microarray analysis   Moshe Olshansky
• [BioC] Classification   Moshe Olshansky
• [BioC] goseq - overrepresented p-values   Alicia Oshlack
• [BioC] AffyProbeMiner Mouse 4302 geneccds CDF file   Benjamin Otto
• [BioC] PreFiltering probe in microarray analysis   Stephanie PIERSON
• [BioC] Limma : post statistical gene filtering   Stephanie PIERSON
• [BioC] BSgenome package - danRer7 genome assembly   Hervé Pagès
• [BioC] removing packages from the workspace - is this ok?   Hervé Pagès
• [BioC] Calling R from php   Hervé Pagès
• [BioC] BLAST in R   Hervé Pagès
• [BioC] IRanges package: findOverlaps on blobs   Hervé Pagès
• [BioC] using and combining of "subseq"   Hervé Pagès
• [BioC] IRanges package: findOverlaps on blobs   Hervé Pagès
• [BioC] IRanges: Request for a "step" argument in runsum   Hervé Pagès
• [BioC] cosine similarity   Achilleas Pitsillides
• [BioC] XPS crashes   Clara Pons
• [BioC] XPS crashes   Clara Pons
• [BioC] CMA help   Clara Pons
• [BioC] EdgeR: ANOVA-like analysis   Christian M. Probst
• [BioC] EdgeR: ANOVA-like analysis   Christian M. Probst
• [BioC] limit the number of rows in decideTests   Wendy Qiao
• [BioC] lumi, Illumina Methylation 450k, and robust methylation calls   Tim Rayner
• [BioC] CEL files not valid?   James F. Reid
• [BioC] illumina beadarray GEO files   James F. Reid
• [BioC] how to make an MA plot with single color agilent microarray?   Richard
• [BioC] Retrieving a subset from normalized microarray data for   Gerry S
• [BioC] An error in oligo: All the CEL files must be of the same type??   Setsuko Sahara
• [BioC] An error in oligo: All the CEL files must be of the same type??   Setsuko Sahara
• [BioC] 2 way anova in Bioconductor   Natasha Sahgal
• [BioC] siggenes parameters   Holger Schwender
• [BioC] Fw: a bug in heatmap.plus?   Shi, Tao
• [BioC] mirna20.db   Ed Siefker
• [BioC] Hypergeometric test in ChIPpeakAnno   Abhishek Singh
• [BioC] Sliding window t-test?   Tim Smith
• [BioC] rtracklayer error?   Tim Smith
• [BioC] limma: multiple regression   Gordon K Smyth
• [BioC] limit the number of rows in decideTests   Gordon K Smyth
• [BioC] Questions on doing EdgeR Analysis of Timeseries Data   Gordon K Smyth
• [BioC] edgeR: Identifying genes up regulated in one of multilple samples, and those stable across rsamples   Gordon K Smyth
• [BioC] edgeR   Gordon K Smyth
• [BioC] edgeR   Gordon K Smyth
• [BioC] Questions on doing EdgeR Analysis of Timeseries Data   Gordon K Smyth
• [BioC] Questions on doing EdgeR Analysis of Timeseries Data   Gordon K Smyth
• [BioC] median normalization in limma   Gordon K Smyth
• [BioC] Questions on doing EdgeR Analysis of Timeseries Data   Gordon K Smyth
• [BioC] EdgeR: ANOVA-like analysis   Gordon K Smyth
• [BioC] Help with the weaver example from limma package   Gordon K Smyth
• [BioC] Limma and spot-specific dye effects for an environmental microarray   Gordon K Smyth
• [BioC] Limma and spot-specific dye effects for an environmental microarray   Gordon K Smyth
• [BioC] EdgeR: ANOVA-like analysis   Gordon K Smyth
• [BioC] limma design for tech and biol replicates (1 color design)   Gordon K Smyth
• [BioC] MA plots for single channel agilent array data, plotMA3by2 and atomic vectors issue   Gordon K Smyth
• [BioC] creating an MA plot with two single channel agilent arrays   Gordon K Smyth
• [BioC] how to make an MA plot with single color agilent microarray?   Gordon K Smyth
• [BioC] creating an MA plot with two single channel agilent arrays   Gordon K Smyth
• [BioC] sequential removeBatchEffect()?   Gordon K Smyth
• [BioC] TF database   Sole Acha, Xavi
• [BioC] Working with Agilent 4X44k array,two color experiment   Srinivas Srikanth
• [BioC] Working with Agilent 4X44k array,two color experiment   Srikanth Manda Srinivas
• [BioC] Working with Agilent 4X44k array,two color experiment   Srikanth Manda Srinivas
• [BioC] Working with Agilent 4X44k array,two color experiment   Srikanth Manda Srinivas
• [BioC] Working with Agilent 4X44k array,two color experiment   Srikanth Manda Srinivas
• [BioC] Plotting heat map for selected Genes   Srikanth Manda Srinivas
• [BioC] Rgraphviz and margins   Robert Stojnic
• [BioC] DNAcopy segment() Infinite Loop   Dario Strbenac
• [BioC] Limma : post statistical gene filtering   Stéphanie
• [BioC] methylated and unmethylated function   Zhifu Sun
• [BioC] Package: genomes - update(lproks)   Shinichi Sunagawa
• [BioC] removing packages from the workspace - is this ok?   Tim Triche, Jr.
• [BioC] removing packages from the workspace - is this ok?   Tim Triche, Jr.
• [BioC] removing packages from the workspace - is this ok?   Tim Triche, Jr.
• [BioC] methylated and unmethylated function   Tim Triche, Jr.
• [BioC] memory problem   Tim Triche, Jr.
• [BioC] Detection p value cut off   Tim Triche, Jr.
• [BioC] Infinium 450k beta value distribution   Tim Triche, Jr.
• [BioC] Classification   Tim Triche, Jr.
• [BioC] Classification   Tim Triche, Jr.
• [BioC] Detection p value cut off   Tim Triche, Jr.
• [BioC] CMA help   Tim Triche, Jr.
• [BioC] Classification   Tim Triche, Jr.
• [BioC] GenomicFeatures more detail.   Fabrice Tourre
• [BioC] help with ACME package   Fabrice Tourre
• [BioC] CGHcall and Normalization   Salih Tuna
• [BioC] CGHcall and Normalization   Salih Tuna
• [BioC] CGHcall and Normalization   Salih Tuna
• [BioC] dCHip   Ayse Ulgen
• [BioC] merging two DNAStringsets   Ullrich, Kristian
• [BioC] using and combining of "subseq"   Kristian Ullrich
• [BioC] [OT][job opening]   Tobias Verbeke
• [BioC] BLAST in R   January Weiner
• [BioC] Selecting genes for machine learning   January Weiner
• [BioC] TF database   Hollis Wright
• [BioC] Affymetrix Gene Chip Normalization   Bin Ye
• [BioC] miRNA microarray analysis   Assa Yeroslaviz
• [BioC] rma vs. call.exprs   Assa Yeroslaviz
• [BioC] siggenes parameters   Assa Yeroslaviz
• [BioC] cause 'memory not mapped'   Won Cheol Yim
• [BioC] lumi and plotHousekeepingGene   Janet Young
• [BioC] lumi and plotHousekeepingGene   Janet Young
• [BioC] please remove my address from mailing list   Bea Yu
• [BioC] DNAcopy dev version installation problem   Zhu, Lihua (Julie)
• [BioC] DNAcopy dev version installation problem   Zhu, Lihua (Julie)
• [BioC] DNAcopy dev version installation problem   Zhu, Lihua (Julie)
• [BioC] 4-way venn diagram with ChIPpeakAnno   Zhu, Lihua (Julie)
• [BioC] ChIPpeakAnno   Zhu, Lihua (Julie)
• [BioC] choice of biomaRt feature from annotatePeakInBatch   Zhu, Lihua (Julie)
• [BioC] Information needed for ChIPpeakAnno package   Zhu, Lihua (Julie)
• [BioC] Hypergeometric test in ChIPpeakAnno   Zhu, Lihua (Julie)
• [BioC] Hypergeometric test in ChIPpeakAnno   Zhu, Lihua (Julie)
• [BioC] ChIPpeakAnno package - filter annotatedPeak for GO enrichment analysis   Zhu, Lihua (Julie)
• [BioC] 2 way anova in Bioconductor   axel.klenk at actelion.com
• [BioC] 2 way anova in Bioconductor   axel.klenk at actelion.com
• [BioC] biobase   tulay akal
• [BioC] a bug in the function pamr.plotcen()   Alogmail2 at aol.com
• [BioC] Infinium 450k beta value distribution   maria giulia bacalini
• [BioC] 2 way anova in Bioconductor   mjonczyk at biol.uw.edu.pl
• [BioC] CEL files not valid?   array chip
• [BioC] CEL files not valid?   array chip
• [BioC] 2 way anova in Bioconductor   Dana.Stanley at csiro.au
• [BioC] XPS crashes   cstrato
• [BioC] XPS crashes   cstrato
• [BioC] Affymetrix Gene Chip Normalization   cstrato
• [BioC] removing packages from the workspace - is this ok?   J.delasHeras at ed.ac.uk
• [BioC] Use of individual channel from a 2-color array as a measure of expression level?   J.delasHeras at ed.ac.uk
• [BioC] removing packages from the workspace - is this ok?   J.delasHeras at ed.ac.uk
• [BioC] biomaRt: using a list as values. confused...   J.delasHeras at ed.ac.uk
• [BioC] Use of individual channel from a 2-color array as a measure of expression level?   J.delasHeras at ed.ac.uk
• [BioC] removing packages from the workspace - is this ok?   J.delasHeras at ed.ac.uk
• [BioC] biomaRt: using a list as values. confused...   J.delasHeras at ed.ac.uk
• [BioC] biomaRt: using a list as values. confused...   J.delasHeras at ed.ac.uk
• [BioC] Bioconductor Digest, Vol 100, Issue 28   Dennis.Burian at faa.gov
• [BioC] quantile normalization+limma package   samane fazeli
• [BioC] quantile normalization+limma package   samane fazeli
• [BioC] median normalization in limma   samane fazeli
• [BioC] scale and quantile normalization methods in limma   samane fazeli
• [BioC] scale and quantile normalization methods in limma   samane fazeli
• [BioC] scale and quantile normalization methods in limma   samane fazeli
• [BioC] Limma; matrix of microarray data and design matrix   john herbert
• [BioC] Limma; matrix of microarray data and design matrix   john herbert
• [BioC] maSigPro and "subscript out of bounds"   andrea.grilli at ior.it
• [BioC] Detection p value cut off   khadeeja ismail
• [BioC] cosine similarity   joe j
• [BioC] cosine similarity   joe j
• [BioC] Classification   David martin
• [BioC] Classification   David martin
• [BioC] Classification   David martin
• [BioC] Classification   David martin
• [BioC] Classification   David martin
• [BioC] PreFiltering probe in microarray analysis   wxu at msi.umn.edu
• [BioC] PreFiltering probe in microarray analysis   wxu at msi.umn.edu
• [BioC] PreFiltering probe in microarray analysis   wxu at msi.umn.edu
• [BioC] PreFiltering probe in microarray analysis   wxu at msi.umn.edu
• [BioC] DNAcopy segment() Infinite Loop   SeshanV at mskcc.org
• [BioC] analyse GSM files form GEO repository   nac
• [BioC] fold change after gcrma()   yotsawat pomyen
• [BioC] IRanges question!   Asma rabe
• [BioC] cluster genes based on expression pattern   Asma rabe
• [BioC] vennSelect error   mali salmon
• [BioC] vennSelect error   mali salmon
• [BioC] vennSelect error   mali salmon
• [BioC] vennSelect error   mali salmon
• [BioC] vennSelect error   mali salmon
• [BioC] snpMatrix trouble with read.HapMap.data() and ld.snp()   rna seq
• [BioC] Segmentation fault using pair.result.ld.snp in snpMatrix package   rna seq
• [BioC] edgeR   puvan001 at umn.edu
• [BioC] edgeR   puvan001 at umn.edu
• [BioC] PreFiltering probe in microarray analysis   wayne xu

Last message date: Thu Jun 30 22:12:29 CEST 2011
Archived on: Thu Jun 30 22:12:45 CEST 2011

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