June 2007 Archives by author

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Starting: Fri Jun 1 00:21:45 CEST 2007
Ending: Sat Jun 30 17:11:15 CEST 2007
Messages: 597

• [BioC] RMySQL, for loop problem...   Peter Sørensen (HAG)
• [BioC] uppercase & lowercase   Federico Abascal
• [BioC] Affy normalization with custom chip.   Cei Abreu-Goodger
• [BioC] Affy normalization with custom chip.   Cei Abreu-Goodger
• [BioC] makePDpackage from makePlatformDesign package for Affymetrix Tiling   Joke Allemeersch
• [BioC] makePDpackage from makePlatformDesign package for Affymetrix Tiling   Joke Allemeersch
• [BioC] Can subject be treated as fixed effect in linear model with microarray data   Naomi Altman
• [BioC] must one test all that is included in normalization?   Naomi Altman
• [BioC] Agilent's duplicate spots   Naomi Altman
• [BioC] How to do clustering   Naomi Altman
• [BioC] removeing or filtering data   Naomi Altman
• [BioC] limma design   Naomi Altman
• [BioC] adjusted p values   Naomi Altman
• [BioC] limma design   Naomi Altman
• [BioC] Help in the normalization procedures of a cDNA microarray analysis by using limma (problem in dye effect)   Naomi Altman
• [BioC] Simple question on citation of an openVignette document   Alvord, Greg (DMS) [Contr]
• [BioC] BeadChip location info.   Lynn Amon
• [BioC] BeadChip location info.   Lynn M Amon
• [BioC] how to see the content of a R function in a package?   James Anderson
• [BioC] how to see the content of a R function in a package?   James Anderson
• [BioC] how to interpret the results from predict(SVMmodel, testdata) ?   James Anderson
• [BioC] question about U133 plus 2.0 array   James Anderson
• [BioC] question about U133 plus 2.0 array   James Anderson
• [BioC] how to load RData in a loop with different file name?   James Anderson
• [BioC] how to load RData in a loop with different file name?   James Anderson
• [BioC] QC question using simpleaffy   James Anderson
• [BioC] QC question using simpleaffy   James Anderson
• [BioC] question about scale factor for Affy chip   James Anderson
• [BioC] question about scale factor for Affy chip   James Anderson
• [BioC] question about scale factor for Affy chip   James Anderson
• [BioC] about two way anova on time and treatment   James Anderson
• [BioC] How to identify corrupt Affy CEL file?   Henrik Bengtsson
• [BioC] Help with limma experiment design - two color data   Yair Benita
• [BioC] GOstats suggestion   Dick Beyer
• [BioC] Gene Ontology relationships   Dick Beyer
• [BioC] QCReport problem   Sanchita Bhattacharya
• [BioC] lumi question, and a bug   Michal Blazejczyk
• [BioC] Another lumi question (sample info)   Michal Blazejczyk
• [BioC] Double-logging in lumi + loess?   Michal Blazejczyk
• [BioC] MAGE_ML and RMAGEML   Eugene Bolotin
• [BioC] Affy TilingArray makePDpackage   Ben Bolstad
• [BioC] Question about patchwork affy pre-processing   Ben Bolstad
• [BioC] ReadAffy - Error VECTOR_ELT() can only be applied to a 'list', not a 'char'   Ben Bolstad
• [BioC] makePDpackage problem   Ben Bolstad
• [BioC] Simple question on citation of an openVignette document   Ben Bolstad
• [BioC] makePDpackage problem   Ben Bolstad
• [BioC] question about U133 plus 2.0 array   Ben Bolstad
• [BioC] question about U133 plus 2.0 array   Ben Bolstad
• [BioC] : Affy Human Gene ST1.0 cdf   Anthony Bosco
• [BioC] linkage distances   Daniel Brewer
• [BioC] linkage distances   Daniel Brewer
• [BioC] Batch sequence retrieval   Daniel Brewer
• [BioC] Affymetrix Human Exon Array MPS and PS files contain different probeset groups   Daniel Brewer
• [BioC] SAGx   Pi Broberg
• [BioC] RMySQL, for loop problem...   Alessandro Bruselles
• [BioC] RMySQL, for loop problem...   Alessandro Bruselles
• [BioC] RMySQL, for loop problem...   Alessandro Bruselles
• [BioC] RMySQL, for loop problem...   Alessandro Bruselles
• [BioC] Limma and R   VERONICA COSTANTINI
• [BioC] Expression microarray & Proteomic data   Stefano Calza
• [BioC] Expression microarray & Proteomic data   Stefano Calza
• [BioC] RMA just background correction   Stefano Calza
• [BioC] Very high memory usage using annaffy method aafTableFrame under R 2.4 and above   Dave Campbell
• [BioC] Go term memberships.   Piero Cantone
• [BioC] substription   Piero Cantone
• [BioC] pmStrand() in oligo (version...)   Benilton Carvalho
• [BioC] smoothScatter axis limits   Benilton Carvalho
• [BioC] pmStrand() in oligo (version...)   Benilton Carvalho
• [BioC] pmStrand() in oligo (version...)   Benilton Carvalho
• [BioC] Fwd: pmStrand() in oligo (version...)   Benilton Carvalho
• [BioC] makecdfenv package and SNParrays   Benilton Carvalho
• [BioC] Fwd: pmStrand() in oligo (version...)   Benilton Carvalho
• [BioC] crlmm error: cluster centres   Benilton Carvalho
• [BioC] crlmm error: cluster centres   Benilton Carvalho
• [BioC] uppercase & lowercase   Benilton Carvalho
• [BioC] Affy TilingArray makePDpackage   Benilton Carvalho
• [BioC] memory error on unix   Benilton Carvalho
• [BioC] Documentation needed for Oligo package   Benilton Carvalho
• [BioC] trasnforming log base 2 values into decimal values   Benilton Carvalho
• [BioC] ReadAffy - Error VECTOR_ELT() can only be applied to a 'list', not a 'char'   Benilton Carvalho
• [BioC] SNPRMA: Normalizing...Error in readChar(con, 5) : cannot open the connection   Benilton Carvalho
• [BioC] SNPRMA: Normalizing...Error in readChar(con, 5) : cannot open the connection   Benilton Carvalho
• [BioC] Memory problems with the Oligo package   Benilton Carvalho
• [BioC] CDF package in R (windows)   Salim Charaniya
• [BioC] CDF package in R (windows)   Salim Charaniya
• [BioC] uk - What affiliate marketing company to use?   Charlie
• [BioC] specifying metadata packages on the fly   Tae-Hoon Chung
• [BioC] Critical Assessment of Microarray Data Analysis - CAMDA07 Conference Announcement   Ana Conesa
• [BioC] about two way anova on time and treatment   Kevin R. Coombes
• [BioC] Problem with tkWidgets with 2.5.0 on Mac OS Tiger   John Cornell
• [BioC] RMySQL, for loop problem...   Cui, Wenwu (NIH/NLM/NCBI) [C]
• [BioC] RMySQL, for loop problem...   Cui, Wenwu (NIH/NLM/NCBI) [C]
• [BioC] Bug fix to made4   Aedin Culhane
• [BioC] ReadAffy - Error VECTOR_ELT() can only be applied to a 'list', not a 'char'   Aedin Culhane
• [BioC] ReadAffy in library affy   Michael Dannemann
• [BioC] Documentation needed for Oligo package   Aashish Dattani
• [BioC] Few clarifications on the mixture model   Aashish Dattani
• [BioC] Error in the Oligo package with pd.mapping50k.xba240   Aashish Dattani
• [BioC] Memory problems with the Oligo package   Aashish Dattani
• [BioC] save R object   Sean Davis
• [BioC] save R object   Sean Davis
• [BioC] getGEO function to load files from other locations than GEO ?   Sean Davis
• [BioC] getGEO function to load files from other locations than GEO ?   Sean Davis
• [BioC] getGEO function to load files from other locations than GEO ?   Sean Davis
• [BioC] uppercase & lowercase   Sean Davis
• [BioC] Annotations dealing with "removed" refseq record   Sean Davis
• [BioC] problem with GDS2eSet in GEOquery package   Sean Davis
• [BioC] problem with GDS2eSet in GEOquery package   Sean Davis
• [BioC] How to do clustering   Sean Davis
• [BioC] from RefSeq GI protein identifiers to GO terms   Sean Davis
• [BioC] How to do clustering   Sean Davis
• [BioC] agilent data format   Sean Davis
• [BioC] Public Peptide Microarray Datasets ?   Sean Davis
• [BioC] AnnotationDbi package only available for R 2.6.0 or higher version?   Sean Davis
• [BioC] RMySQL, for loop problem...   Sean Davis
• [BioC] Batch sequence retrieval   Sean Davis
• [BioC] RMySQL, for loop problem...   Sean Davis
• [BioC] RMySQL, for loop problem...   Sean Davis
• [BioC] Expression microarray & Proteomic data   Sean Davis
• [BioC] from gene name to locuslink id   Sean Davis
• [BioC] AnnBuilder and tab delimited files annotation   Sean Davis
• [BioC] normalization across sites   Sean Davis
• [BioC] map probe to refseq and select 3' biased one   Sean Davis
• [BioC] Help with very old CEL files   Jeremy Davis-Turak
• [BioC] Help with very old CEL files   Jeremy Davis-Turak
• [BioC] pmStrand() in oligo (version...)   De Bondt, An-7114 [PRDBE]
• [BioC] oligo: where to find pd.mapping250k.nsp.crlmm.regions   De Bondt, An-7114 [PRDBE]
• [BioC] pmStrand() in oligo (version...)   De Bondt, An-7114 [PRDBE]
• [BioC] pmStrand() in oligo (version...)   De Bondt, An-7114 [PRDBE]
• [BioC] pmStrand() in oligo (version...)   De Bondt, An-7114 [PRDBE]
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Diego Diez
• TALKTECH TELEMEDIA wird diese Woche glänzen   Dr. K.Hoffmann, High-Performance-Strategien
• [BioC] Affy normalization with custom chip.   Jenny Drnevich
• [BioC] Workflow question in lumi   Pan Du
• [BioC] method "[" for class LumiBatch   Pan Du
• [BioC] problem reading raw data file with lumi   Pan Du
• [BioC] sampleinfo and lumiN of lumi package   Pan Du
• [BioC] lumi error?   Pan Du
• [BioC] lumi error?   Pan Du
• [BioC] beadarray - raw data import - bead background intensities faulty   Mark Dunning
• [BioC] Error installing EBImage on Suse 10.1   Mark Dunning
• [BioC] Error installing EBImage on Suse 10.1   Mark Dunning
• [BioC] Illumina Treatment   Mark Dunning
• [BioC] getting Locus Link ids from gene symbol   Steffen Durinck
• [BioC] intron sequences from biomaRt   Durinck, Steffen (NIH/NCI) [F]
• [BioC] Biomart with human genes NCBI 35   Durinck, Steffen (NIH/NCI) [F]
• [BioC] changes in biomart database ?   Durinck, Steffen (NIH/NCI) [F]
• [BioC] intron sequences from biomaRt   Durinck, Steffen (NIH/NCI) [F]
• [BioC] Biomart with human genes NCBI 35   Durinck, Steffen (NIH/NCI) [F]
• [BioC] uppercase & lowercase   Heidi Dvinge
• [BioC] uppercase & lowercase   D.Enrique ESCOBAR ESPINOZA
• [BioC] R 2.5.0-3 version inconsitance   D.Enrique ESCOBAR ESPINOZA
• [BioC] trasnforming log base 2 values into decimal values   D.Enrique ESCOBAR ESPINOZA
• [BioC] removeing or filtering data   D.Enrique ESCOBAR ESPINOZA
• [BioC] makePDpackage from makePlatformDesign package for Affymetrix Tiling   Rudy van Eijsden
• [BioC] Help with flowCore Package: Working through the HowTo   Byron Ellis
• [BioC] Help with flowCore Package: Working through the HowTo   Byron Ellis
• [BioC] Column names in FCS files   Byron Ellis
• [BioC] Help: Slow Loading pdfs Produced by 'plot'   Byron Ellis
• [BioC] how to load RData in a loop with different file name?   Byron Ellis
• [BioC] beadarray - raw data import - bead background intensities faulty   Felix Engel
• [BioC] beadarray - raw data import - bead background intensities faulty   Felix Engel
• [BioC] Gene Ontology relationships   Seth Falcon
• [BioC] Gene Ontology relationships   Seth Falcon
• [BioC] GOstats suggestion   Seth Falcon
• [BioC] chromosome plot   Seth Falcon
• [BioC] Bioconductor web page   Seth Falcon
• [BioC] oligo: where to find pd.mapping250k.nsp.crlmm.regions   Seth Falcon
• [BioC] chromosome plot   Seth Falcon
• [BioC] problem with hyperGTest function   Seth Falcon
• [BioC] Go term memberships.   Seth Falcon
• [BioC] GOstats suggestion   Seth Falcon
• [BioC] CDF package in R (windows)   Seth Falcon
• [BioC] Gene Ontology relationships   Seth Falcon
• [BioC] Question about htmlReport() in GOstats package   Seth Falcon
• [BioC] R 2.5.0-3 version inconsitance   Seth Falcon
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Seth Falcon
• [BioC] cateGOry error   Seth Falcon
• [BioC] htmlReport in GOstats package   Seth Falcon
• [BioC] BioC RPM and public YUM repository   Seth Falcon
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Seth Falcon
• [BioC] using GOstats hyperGTest without microarray annotation   Seth Falcon
• [BioC] specifying metadata packages on the fly   Seth Falcon
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Seth Falcon
• [BioC] read.phenoData   Seth Falcon
• [BioC] warning (condition has length>1) when reading in Agilent hyb text files   Seth Falcon
• [BioC] How to do clustering   Seth Falcon
• [BioC] How to do clustering   Seth Falcon
• [BioC] Help: Slow Loading pdfs Produced by 'plot'   Seth Falcon
• [BioC] How to do clustering   Seth Falcon
• [BioC] Error in the Oligo package with pd.mapping50k.xba240   Seth Falcon
• [BioC] Sally-Ann Walford   Hare Family
• [BioC] warning (condition has length>1) when reading in Agilent hyb text files   John Fernandes
• [BioC] warning (condition has length>1) when reading in Agilent hyb text files   John Fernandes
• [BioC] warning (condition has length>1) when reading in Agilent hyb text files   John Fernandes
• [BioC] Filtering genes based on Agilent flags   John Fernandes
• [BioC] problem with annbuilder   Francesca
• [BioC] Affy normalization with custom chip.   Daniel Gatti
• [BioC] QC question using simpleaffy   Laurent Gatto
• [BioC] QC question using simpleaffy   Laurent Gatto
• [BioC] Problems installing BioC, zlib.h   Laurent Gatto
• [BioC] problem reading raw data file with lumi   Sebastien Gerega
• [BioC] How to do clustering   Thomas Girke
• [BioC] How to do clustering   Thomas Girke
• [BioC] linkage distances   Thomas Girke
• [BioC] How to do clustering   Thomas Girke
• [BioC] How to do clustering   Thomas Girke
• [BioC] About Analysis of Differentially Expressed Genes in R & BioConductor Manual   Thomas Girke
• [BioC] PFAM annotation from HyperG   Dario Greco
• [BioC] intron sequences from biomaRt   Dario Greco
• [BioC] intron sequences from biomaRt   Dario Greco
• [BioC] intron sequences from biomaRt   Dario Greco
• [BioC] memory error on unix   Kasper Daniel Hansen
• [BioC] help with rendering layers in Rgraphviz   Kasper Daniel Hansen
• [BioC] memory error on unix   Kasper Daniel Hansen
• [BioC] help with rendering layers in Rgraphviz   Kasper Daniel Hansen
• [BioC] CLF/PGF parser   Kasper Daniel Hansen
• [BioC] CLF/PGF parser   Kasper Daniel Hansen
• [BioC] makePDpackage problem   Kasper Daniel Hansen
• [BioC] normalization across sites   Kasper Daniel Hansen
• [BioC] Help with very old CEL files   Kasper Daniel Hansen
• [BioC] Loading problem with XML_1.9   Kasper Daniel Hansen
• [BioC] Affy High Throughput arrays   Kasper Daniel Hansen
• [BioC] Affymetrix Human Exon Array MPS and PS files contain different probeset groups   Stephen Henderson
• [BioC] memory error on unix   Brandon Higgs
• [BioC] biomaRt: how to retrieve the MOUSE gene symbol?   Hooiveld, Guido
• [BioC] How/where to retrieve info on Swiss Prot Accession IDs? w/ biomaRt?   Hooiveld, Guido
• [BioC] How/where to retrieve info on Swiss Prot Accession IDs? w/ biomaRt?   Hooiveld, Guido
• [BioC] question about scale factor for Affy chip   Hooiveld, Guido
• [BioC] question about scale factor for Affy chip   Hooiveld, Guido
• [BioC] question about scale factor for Affy chip   Hooiveld, Guido
• [BioC] duplicateCor   Houeix, Benoit
• [BioC] ReadAffy in library affy   Wolfgang Huber
• [BioC] smoothScatter axis limits   Wolfgang Huber
• [BioC] cateGOry error   Wolfgang Huber
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Wolfgang Huber
• [BioC] vsn2 - update   Wolfgang Huber
• [BioC] Error installing EBImage on Suse 10.1   Wolfgang Huber
• [BioC] Error installing EBImage on Suse 10.1   Wolfgang Huber
• [BioC] from RefSeq GI protein identifiers to GO terms   Lina Hultin-Rosenberg
• [BioC] from RefSeq GI protein identifiers to GO terms   Lina Hultin-Rosenberg
• [BioC] from RefSeq to GO terms / gene symbol to geneID   Lina Hultin-Rosenberg
• [BioC] from RefSeq to GO terms / gene symbol to geneID   Lina Hultin-Rosenberg
• [BioC] Beginner: resources, WebArray and CARMAweb.   Paolo Innocenti
• [BioC] problem with GDS2eSet in GEOquery package   Sergii Ivakhno
• [BioC] problem with GDS2eSet in GEOquery package   Sergii Ivakhno
• [BioC] problem with GDS2eSet in GEOquery package   Sergii Ivakhno
• [BioC] Pipeline for listing phenoData in exprSet   Sergii Ivakhno
• [BioC] Question about patchwork affy pre-processing   Grant Izmirlian
• [BioC] beadarray readIllumina suggestions   Keith James
• [BioC] Help with Prada Package: Installation and Run   M. Jankowski
• [BioC] Help with flowCore Package: Working through the HowTo   M. Jankowski
• [BioC] Help with flowCore Package: Working through the HowTo   M. Jankowski
• [BioC] Help: Slow Loading pdfs Produced by 'plot'   M. Jankowski
• [BioC] Help: Slow Loading pdfs Produced by 'plot'   M. Jankowski
• [BioC] Illimina, BeadExplorer : getQC problem   Duhaime Johanne
• [BioC] Limma - small bug in decideTests?   Misha Kapushesky
• [BioC] se.exprs extractor question   Kellie J. Archer, Ph.D.
• [BioC] se.exprs extractor question   Kellie J. Archer, Ph.D.
• [BioC] On-Line Intro SPSS Course   Kells, Richard
• [BioC] help with rendering layers in Rgraphviz   Mark W Kimpel
• [BioC] help with rendering layers in Rgraphviz   Mark W Kimpel
• [BioC] question regarding ncbi gene2accession and annbuilder   Mark W Kimpel
• [BioC] Lower prices really are a possibility!   Eli Kirk
• [BioC] How to display or output expression data with non-unique feature labels?   Kocherginsky, Masha [BSD] - HSD
• [BioC] method "[" for class LumiBatch   Matthias Kohl
• [BioC] method "[" for class LumiBatch   Matthias Kohl
• [BioC] Problem with BioStrings: patternMatch ALSO BLAST   Paul Leo
• [BioC] SimpleAffy qc problem   Daofeng Li
• [BioC] SimpleAffy qc problem   Daofeng Li
• [BioC] SimpleAffy qc problem   Daofeng Li
• [BioC] SimpleAffy qc problem   Daofeng Li
• [BioC] limma reposTools problem   Daofeng Li
• [BioC] limma reposTools problem   Daofeng Li
• [BioC] BioC RPM and public YUM repository   Daofeng Li
• [BioC] analysis with no replication   Daofeng Li
• [BioC] analysis with no replication   Daofeng Li
• [BioC] limma gene symbol not avialable problem   Daofeng Li
• [BioC] limma gene symbol not avialable problem   Daofeng Li
• [BioC] Fwd: limma gene symbol not avialable problem   Daofeng Li
• [BioC] limma gene symbol not avialable problem   Daofeng Li
• [BioC] AnnotationDbi package only available for R 2.6.0 or higher version?   Daofeng Li
• [BioC] AnnotationDbi package only available for R 2.6.0 or higher version?   Daofeng Li
• [BioC] BeadChip location info.   Nianhua Li
• [BioC] getting Locus Link ids from gene symbol   Nianhua Li
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Nianhua Li
• [BioC] problem with annbuilder   Nianhua Li
• [BioC] question regarding ncbi gene2accession and annbuilder   Nianhua Li
• [BioC] BeadChip location info   Simon Lin
• [BioC] Memory issue in 500k chip analysis   Simon Lin
• [BioC] from RefSeq to GO terms / gene symbol to geneID   Simon Lin
• [BioC] Bioconductor Digest, Vol 52, Issue 18   Simon Lin
• [BioC] from RefSeq to GO terms / gene symbol to geneID   Simon Lin
• [BioC] SNPRMA: Normalizing...Error in readChar(con, 5) : cannot open the connection   Alex Lisovich
• [BioC] SNPRMA: Normalizing...Error in readChar(con, 5) : cannot open the connection   Alex Lisovich
• [BioC] SNPRMA: Normalizing...Error in readChar(con, 5) : cannot open the connection   Alex Lisovich
• [BioC] error message----Estimation of var.prior failed   Jia Liu
• [BioC] limma design   James MacDonald
• [BioC] ReadAffy in library affy   James W. MacDonald
• [BioC] barley cdf   James W. MacDonald
• [BioC] QCReport problem   James W. MacDonald
• [BioC] QCReport problem   James W. MacDonald
• [BioC] uppercase & lowercase   James W. MacDonald
• [BioC] makecdfenv error for custom cdf   James W. MacDonald
• [BioC] mas5calls with make.cdf.env   James W. MacDonald
• [BioC] CDF package in R (windows)   James W. MacDonald
• [BioC] SimpleAffy qc problem   James W. MacDonald
• [BioC] Beginner: resources, WebArray and CARMAweb.   James W. MacDonald
• [BioC] mas5calls with make.cdf.env   James W. MacDonald
• [BioC] mas5calls with make.cdf.env   James W. MacDonald
• [BioC] Agilent's duplicate spots   James W. MacDonald
• [BioC] 'recursive default argument' error in GOENTREZID2GO   James W. MacDonald
• [BioC] limma reposTools problem   James W. MacDonald
• [BioC] 'recursive default argument' error in GOENTREZID2GO   James W. MacDonald
• [BioC] cateGOry error   James W. MacDonald
• [BioC] how presence p-values can be accessed in mas5call output?   James W. MacDonald
• [BioC] how presence p-values can be accessed in mas5call output?   James W. MacDonald
• [BioC] limma gene symbol not avialable problem   James W. MacDonald
• [BioC] error in QC report   James W. MacDonald
• [BioC] specifying metadata packages on the fly   James W. MacDonald
• [BioC] CLF/PGF parser   James W. MacDonald
• [BioC] Affy Human Gene ST1.0 cdf   James W. MacDonald
• [BioC] trouble using GCRMA   James W. MacDonald
• [BioC] custom arrays and eventually gcrma   James W. MacDonald
• [BioC] trasnforming log base 2 values into decimal values   James W. MacDonald
• [BioC] removeing or filtering data   James W. MacDonald
• [BioC] limma design   James W. MacDonald
• [BioC] SnpChip pdf   James W. MacDonald
• [BioC] Help with very old CEL files   James W. MacDonald
• [BioC] What is the best way to eliminate non-variants from set of arrays?   James W. MacDonald
• [BioC] Question on background correction using RMA   James W. MacDonald
• [BioC] Biomart with human genes NCBI 35   James W. MacDonald
• [BioC] biomaRt: how to retrieve the MOUSE gene symbol?   James W. MacDonald
• [BioC] Biomart with human genes NCBI 35   James W. MacDonald
• [BioC] Illimina, BeadExplorer : getQC problem   Nick Matigian
• [BioC] beadarray - raw data import - bead background intensities faulty   Nick Matigian
• [BioC] Illimina, BeadExplorer : getQC problem   Nick Matigian
• [BioC] Normalization of miRNA arrays   Denise Mauldin
• [BioC] snapCGH; export results of summarize.clones() function from aCGH   Steven McKinney
• [BioC] snapCGH; export results of summarize.clones() function from aCGH   Steven McKinney
• [BioC] Agilent's duplicate spots   Mcmahon, Wyatt
• [BioC] Agilent's duplicate spots   Mcmahon, Wyatt
• [BioC] Filtering genes based on Agilent flags   Mcmahon, Wyatt
• [BioC] must one test all that is included in normalization?   Maurice Melancon
• [BioC] uppercase & lowercase   Sylvia Merk
• [BioC] uppercase & lowercase   Saroj Mohapatra
• [BioC] reading imagene files with LIMMA   Saroj Mohapatra
• [BioC] Help with Prada Package: Installation and Run   Martin Morgan
• [BioC] how presence p-values can be accessed in mas5call output?   Martin Morgan
• [BioC] how presence p-values can be accessed in mas5call output?   Martin Morgan
• [BioC] MAGE_ML and RMAGEML   Martin Morgan
• [BioC] read.phenoData   Martin Morgan
• [BioC] Pipeline for listing phenoData in exprSet   Martin Morgan
• [BioC] how to see the content of a R function in a package?   Martin Morgan
• [BioC] How to do clustering   Martin Morgan
• [BioC] BioC2007, August 6-7 ** early registration ends July 1 **   Martin Morgan
• [BioC] CORRECTION: Re: [R] BioC2007, August 6-7 ** early registration ends July 1 **   Martin Morgan
• [BioC] reading imagene files with LIMMA   Martin Morgan
• [BioC] How to display or output expression data with non-unique feature labels?   Martin Morgan
• [BioC] Problem with tkWidgets with 2.5.0 on Mac OS Tiger   Martin Morgan
• [BioC] how presence p-values can be accessed in mas5call output?   Vladimir Morozov
• [BioC] The anion is a six-coordinate complex with a distorted octahedral geometry around NiII.   Bean Y. Nat
• [BioC] makecdfenv error for custom cdf   Tarun Nayar
• [BioC] Memory issue in 500k chip analysis   Olivier Nuñez
• [BioC] RSqlite error and pd.mapping for oligo package   Olivier Nuñez
• [BioC] Error in Oligo   Olivier Nuñez
• [BioC] OT: Problems with Nimblegen scans?   Alicia Oshlack
• [BioC] Bioconductor web page   Herve Pages
• [BioC] Rgraphviz redefines "head" function   Herve Pages
• [BioC] warning (condition has length>1) when reading in Agilent hyb text files   Herve Pages
• [BioC] RMySQL, for loop problem...   Herve Pages
• [BioC] Help in reading .gpr file in Linux by using the read.maimages   Herve Pages
• [BioC] intron sequences from biomaRt   Herve Pages
• [BioC] how to load RData in a loop with different file name?   Herve Pages
• [BioC] Problems installing BioC, zlib.h   Herve Pages
• [BioC] BufferedMatrixMethods error   Herve Pages
• [BioC] Loading problem with XML_1.9   Herve Pages
• [BioC] BufferedMatrixMethods error   Herve Pages
• [BioC] goTools: ontoCompare question   Paquet, Agnes
• [BioC] save R object   Richard Pearson
• [BioC] analysis with no replication   Richard Pearson
• [BioC] se.exprs extractor question   Richard Pearson
• [BioC] illumina treatment   Jin Peng
• [BioC] Limma contrasts   Xinxia Peng
• [BioC] Windows XP Professional x64 Edition   Francois Pepin
• [BioC] Agilent's duplicate spots   Francois Pepin
• [BioC] Annotations dealing with "removed" refseq record   Francois Pepin
• [BioC] Annotations dealing with "removed" refseq record   Francois Pepin
• [BioC] dealing with NAs in limma   Francois Pepin
• [BioC] map probe to refseq and select 3' biased one   Francois Pepin
• [BioC] Illumina Treatment   Peter
• [BioC] justPlier() on UNIX   Pickard, Mike
• [BioC] SnpChip pdf   Christophe Poulet
• [BioC] getGEO function to load files from other locations than GEO ?   Wolfgang Raffelsberger
• [BioC] getGEO function to load files from other locations than GEO ?   Wolfgang Raffelsberger
• [BioC] getGEO function to load files from other locations than GEO ?   Wolfgang Raffelsberger
• [BioC] GOstats suggestion   Johannes Rainer
• [BioC] GOstats suggestion   Johannes Rainer
• [BioC] GOstats suggestion   Johannes Rainer
• [BioC] Workflow question in lumi   Longsi Ran
• [BioC] beadarray readIllumina suggestions   Matt Ritchie
• [BioC] snapCGH; export results of summarize.clones() function from aCGH   Ian Roberts
• [BioC] snapCGH; export results of summarize.clones() function from aCGH   Ian Roberts
• [BioC] snapCGH; export results of summarize.clones() function from aCGH   Ian Roberts
• [BioC] limma eBayes: how to determine goodness of fit?   Mark Robinson
• [BioC] ReadAffy in library affy   Mark Robinson
• [BioC] limma eBayes: how to determine goodness of fit?   Mark Robinson
• [BioC] limma eBayes: how to determine goodness of fit?   Mark Robinson
• [BioC] duplicate spots on oligonucleotide array   Leonardo Bernardes da Rocha
• [BioC] duplicate spots on oligonucleotide array   Leonardo Bernardes da Rocha
• [BioC] duplicated spots on oligonucleotide array   Leonardo Rocha
• [BioC] Can subject be treated as fixed effect in linear model with microarray data   Guilherme J. M. Rosa
• [BioC] (no subject)   Marie-Paule Roth
• [BioC] linkage distances   David Ruau
• [BioC] Help with flowCore Package: Working through the HowTo   Deepayan Sarkar
• [BioC] Help: Slow Loading pdfs Produced by 'plot'   Deepayan Sarkar
• [BioC] affylmGUI ver 1.10.2 bug fix in release branch   Keith Satterley
• [BioC] Bioconductor web page   Keith Satterley
• [BioC] affylmGUI 1.10.4 fixes 3 errors in Bioconductor release version   Keith Satterley
• [BioC] mas5calls with make.cdf.env   Lana Schaffer
• [BioC] mas5calls with make.cdf.env   Lana Schaffer
• [BioC] mas5calls with make.cdf.env   Lana Schaffer
• [BioC] mas5calls with make.cdf.env   Lana Schaffer
• [BioC] smoothScatter axis limits   Rob Scharpf
• [BioC] smoothScatter axis limits   Rob Scharpf
• [BioC] Open Biostatistician position with Immune Tolerance Network (Location: Wash DC)   David Schmeidler
• [BioC] Problems installing BioC, zlib.h   Markus Schmidberger
• [BioC] Problems installing BioC, zlib.h   Markus Schmidberger
• [BioC] how to see the content of a R function in a package?   Holger Schwender
• [BioC] Post-doctoral position at UCSF   Mark Segal
• [BioC] limma eBayes: how to determine goodness of fit?   Paul Shannon
• [BioC] limma eBayes: how to determine goodness of fit?   Paul Shannon
• [BioC] How to do clustering   William Shannon
• [BioC] How to do clustering   William Shannon
• [BioC] How to do clustering   William Shannon
• [BioC] How to do clustering   William Shannon
• [BioC] linkage distances   William Shannon
• [BioC] Clustering and Classification   William Shannon
• [BioC] Call for Participation -- Classification Society   William Shannon
• [BioC] A package of bioconductor doing differential expression analysis on two arrays?   Jiantao Shi
• [BioC] SNP analysis   Weiwei Shi
• [BioC] agilent data format   Weiwei Shi
• [BioC] agilent data format   Weiwei Shi
• [BioC] Agilent's one color array   Weiwei Shi
• [BioC] from gene name to locuslink id   Weiwei Shi
• [BioC] normalization across sites   Weiwei Shi
• [BioC] normalization across sites   Weiwei Shi
• [BioC] normalization across sites   Weiwei Shi
• [BioC] GSE normalization   Weiwei Shi
• [BioC] GSE normalization   Weiwei Shi
• [BioC] map probe to refseq and select 3' biased one   Weiwei Shi
• [BioC] map probe to refseq and select 3' biased one   Weiwei Shi
• [BioC] Help with Prada Package: Installation and Run   Oleg Sklyar
• [BioC] cateGOry error   Oleg Sklyar
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Oleg Sklyar
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Oleg Sklyar
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Oleg Sklyar
• [BioC] cateGOry error   Oleg Sklyar
• [BioC] 'recursive default argument' error in GOENTREZID2GO   Oleg Sklyar
• [BioC] limma: print-tip loess and empty spots   Gordon Smyth
• [BioC] limma: print-tip loess and empty spots   Gordon Smyth
• [BioC] dealing with NAs in limma   Gordon Smyth
• [BioC] adjusted p values   Gordon Smyth
• [BioC] Limma - small bug in decideTests?   Gordon Smyth
• [BioC] duplicated spots on oligonucleotide array   Gordon Smyth
• [BioC] how to use normalizeForPrintorder accounting for duplicates when there are spots that are not duplicated in the array?   Gordon K Smyth
• [BioC] how to use normalizeForPrintorder accounting for duplicates when there are spots that are not duplicated in the array?   Gordon K Smyth
• [BioC] barley cdf   Lev Soinov
• [BioC] before or after nomalization   Lev Soinov
• [BioC] plotMA in LIMMA   Lev Soinov
• [BioC] limma design   Lev Soinov
• [BioC] limma design   Lev Soinov
• [BioC] limma design   Lev Soinov
• [BioC] adjusted p values   Lev Soinov
• [BioC] limma design   Lev Soinov
• [BioC] about two way anova on time and treatment   Lev Soinov
• [BioC] limma: print-tip loess and empty spots   Adrian Steward
• [BioC] help for limmaGUI   Adrian Steward
• [BioC] But who businessmen   Kristi Stokes
• [BioC] error in QC report   Mayte Suarez-Farinas
• [BioC] BeadChip location info.   Yu Chuan Tai
• [BioC] BeadChip location info.   Yu Chuan Tai
• [BioC] BeadChip location info.   Yu Chuan Tai
• [BioC] software for Affymetrix SNP arrays 6.0   Yu Chuan Tai
• [BioC] GSE normalization   Tan, Ruimin
• [BioC] GSE normalization   Stephen Taylor
• [BioC] GSE normalization   Steve Taylor
• [BioC] save R object   Joern Toedling
• [BioC] GOstats suggestion   Joern Toedling
• [BioC] how to see the content of a R function in a package?   Joern Toedling
• [BioC] how to see the content of a R function in a package?   Joern Toedling
• [BioC] how to load RData in a loop with different file name?   Joern Toedling
• [BioC] How to do clustering   Yolande Tra
• [BioC] getting Locus Link ids from gene symbol   Alex Tsoi
• [BioC] Help in reading .gpr file in Linux by using the read.maimages   Alex Tsoi
• [BioC] Help in the normalization procedures of a cDNA microarray analysis by using limma (problem in dye effect)   Alex Tsoi
• [BioC] Help in the normalization procedures of a cDNA microarray analysis by using limma (problem in dye effect)   Alex Tsoi
• [BioC] makecdfenv package and SNParrays   Tuefferd, Marianne [PRDBE Extern]
• [BioC] linkage distances   Jarno Tuimala
• [BioC] Courses: Traditional and Modern Approaches to Statistical Modelling with R by Dr Bill Venables. in Raleigh and Washington DC   Sue Turner
• [BioC] Public Peptide Microarray Datasets ?   Davide Valentini
• [BioC] What is the best way to eliminate non-variants from set of arrays?   Ruppert Valentino
• [BioC] how to use normalizeForPrintorder accounting for duplicates when there are spots that are not duplicated in the array?   Artur Veloso
• [BioC] how to use normalizeForPrintorder accounting for duplicates when there are spots that are not duplicated in the array?   Artur Veloso
• [BioC] Column names in FCS files   Steven Wanyee
• [BioC] Loading problem with XML_1.9   Luo Weijun
• [BioC] Fwd: pmStrand() in oligo (version...)   Beth Wilmot
• [BioC] crlmm error: cluster centres   Beth Wilmot
• [BioC] memory error on unix   Beth Wilmot
• [BioC] BufferedMatrixMethods error   Beth Wilmot
• [BioC] BufferedMatrixMethods error   Beth Wilmot
• [BioC] BufferedMatrixMethods error   Beth Wilmot
• [BioC] trouble using GCRMA   Zhijin (Jean) Wu
• [BioC] trouble using GCRMA   Zhijin (Jean) Wu
• [BioC] reading imagene files with LIMMA   Yi Xing
• [BioC] reading imagene files with LIMMA   Yi Xing
• [BioC] reading imagene files with LIMMA   Yi Xing
• [BioC] Windows XP Professional x64 Edition   Xirasagar, Sandhya
• [BioC] Windows XP Professional x64 Edition   Xirasagar, Sandhya
• [BioC] RMAPPER   Pengcheng Yang
• [BioC] uppercase & lowercase   John Zhang
• [BioC] help for limmaGUI   Ziping Zhang
• [BioC] Agilent's one color array   Weiyin Zhou
• [BioC] Agilent's one color array   Weiyin Zhou
• [BioC] Question about htmlReport() in GOstats package   Zhu, Dongxiao
• [BioC] htmlReport in GOstats package   Zhu, Dongxiao
• [BioC] custom arrays and eventually gcrma   claire
• [BioC] ReadAffy - Error VECTOR_ELT() can only be applied to a 'list', not a 'char'   aedin culhane
• [BioC] class clusters from hierarchical cluster tree   ariel at df.uba.ar
• [BioC] smoothScatter axis limits   J.delasHeras at ed.ac.uk
• [BioC] limma: print-tip loess and empty spots   J.delasHeras at ed.ac.uk
• [BioC] help for limmaGUI   J.delasHeras at ed.ac.uk
• [BioC] Limma and R   J.delasHeras at ed.ac.uk
• [BioC] OT: Problems with Nimblegen scans?   J.delasHeras at ed.ac.uk
• [BioC] OT: Problems with Nimblegen scans?   J.delasHeras at ed.ac.uk
• [BioC] spotted SNP array   kfbargad at ehu.es
• [BioC] Question on background correction using RMA   Malick.PAYE at eu.biomerieux.com
• [BioC] Bioinformatics position   jpcosta at fc.up.pt
• [BioC] Problem with BioStrings: patternMatch ALSO BLAST   hpages at fhcrc.org
• [BioC] Annotations dealing with "removed" refseq record   nli at fhcrc.org
• [BioC] Illumina Treatment   daneel jordan
• [BioC] Affy TilingArray makePDpackage   joseph
• [BioC] Affy TilingArray makePDpackage   joseph
• [BioC] Affy TilingArray makePDpackage   joseph
• [BioC] makePDpackage problem   joseph
• [BioC] unfashionable enthusiastic   mattress
• [BioC] BioC RPM and public YUM repository   arne.mueller at novartis.com
• [BioC] normalization across sites   arne.mueller at novartis.com
• [BioC] Normalization of 2 color Nimblegen array   dhruv k pant
• [BioC] how to see the content of a R function in a package?   r.athanasiadou
• [BioC] Affy Human Gene ST1.0 cdf   rcaloger
• [BioC] AnnBuilder and tab delimited files annotation   rcaloger
• [BioC] save R object   ruma
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] About Analysis of Differentially Expressed Genes in R & BioConductor Manual   ssls sddd
• [BioC] How to do clustering   ssls sddd
• [BioC] Affy High Throughput arrays   ssls sddd
• [BioC] Yeast Tiling Array BPMAP   iromashk at student.umass.edu
• [BioC] RMA just background correction   iromashk at student.umass.edu
• [BioC] Gene Ontology relationships   davidl at unr.nevada.edu
• [BioC] Gene Ontology relationships   davidl at unr.nevada.edu
• [BioC] Gene Ontology relationships   davidl at unr.nevada.edu
• [BioC] Gene Ontology relationships   davidl at unr.nevada.edu
• [BioC] Gene Ontology relationships   davidl at unr.nevada.edu
• [BioC] goTools: ontoCompare question   davidl at unr.nevada.edu
• [BioC] reading imagene files with LIMMA]   smohapat at vbi.vt.edu
• [BioC] read.phenoData   carol white
• [BioC] trouble using GCRMA   wong
• [BioC] chromosome plot   yanju
• [BioC] chromosome plot   yanju
• [BioC] Can subject be treated as fixed effect in linear model with microarray data   shirley zhang
• [BioC] Can subject be treated as fixed effect in linear model with microarray data   shirley zhang
• [BioC] using GOstats hyperGTest without microarray annotation   marco zucchelli
• [BioC] Rgraphviz redefines "head" function   marco zucchelli
• [BioC] changes in biomart database ?   marco zucchelli
• [BioC] Biomart with human genes NCBI 35   marco zucchelli
• [BioC] Biomart with human genes NCBI 35   marco zucchelli
• [BioC] Biomart with human genes NCBI 35   marco zucchelli
• [BioC] makePDpackage problem   Ingrid H. G. Østensen
• [BioC] makePDpackage problem   Ingrid H. G. Østensen
• [BioC] lumi error?   Ingrid H. G. Østensen
• [BioC] lumi error?   Ingrid H. G. Østensen

Last message date: Sat Jun 30 17:11:15 CEST 2007
Archived on: Sat Jun 30 17:11:23 CEST 2007

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