December 2006 Archives by author
Starting: Fri Dec 1 02:33:10 CET 2006
Ending: Sat Dec 30 02:42:15 CET 2006
Messages: 327
- [BioC] subset of RG - limma
michael watson (IAH-C)
- [BioC] RMA normalization and MAS5.0 detection calls
Naomi Altman
- [BioC] Help:How to do normalization with Ambion bioarray data?
Naomi Altman
- [BioC] Odds Ratio in GOstat
Naomi Altman
- [BioC] Odds Ratio in GOstat
Naomi Altman
- [BioC] Odds Ratio in GOstat
Naomi Altman
- [BioC] Odds Ratio in GOstat [resolved?]
Naomi Altman
- [BioC] Odds Ratio in GOstat [resolved?]
Naomi Altman
- [BioC] Separate Channel Analysis of Two-Color Data
Naomi Altman
- [BioC] Compare results from different analysis (Affymetrix)
Naomi Altman
- [BioC] namespace and other developer tools
Naomi Altman
- [BioC] namespace and other developer tools
Naomi Altman
- [BioC] RMA question
Naomi Altman
- [BioC] Illumina annotation packages
Lynn Amon
- [BioC] Some Genefilter questions
Lourdusamy A Anbarasu
- [BioC] gcrma background correction-saving output
Lourdusamy A Anbarasu
- [BioC] question about using maSigPro
James Anderson
- [BioC] question about maSigPro
James Anderson
- [BioC] out of memory problem using affycoretools
James Anderson
- [BioC] sam question about time course
James Anderson
- [BioC] silly lm and anova question
James Anderson
- [BioC] RMA question
James Anderson
- [BioC] How to read and normalize hundreds of CEL files?
James Anderson
- [BioC] bioconductor
Kesavan Asaithambi
- [BioC] bioconductor
Kesavan Asaithambi
- [BioC] How to use detect call in GCRMA (or RMA) analysis?
Amit Bahl
- [BioC] 2fold sigchanges from limma
Ivan Baxter
- [BioC] makecdfenv
Henrik Bengtsson
- [BioC] ExpressionSet, fitPLM confusion
Henrik Bengtsson
- [BioC] How to read and normalize hundreds of CEL files?
Yair Benita
- [BioC] aCGH across samples
Daniel Brewer
- [BioC] error during installation of genefilter package: "no package 'genefilter' at the repositories"
C Carey
- [BioC] question about maSigPro
Ana Conesa
- [BioC] What is a good method for analyzing differential expression from Illumina BeadStudio summary data?
Kevin R. Coombes
- [BioC] finding cliques with packages Graph and RBGL
Bagatti Davide
- [BioC] finding cliques with packages Graph and RBGL
Bagatti Davide
- [BioC] finding cliques with packages Graph and RBGL
Bagatti Davide
- [BioC] finding cliques with packages Graph and RBGL
Bagatti Davide
- [BioC] snapCGH and CGH method evaluation
Sean Davis
- [BioC] analyzing genomic hybridization data with limma?
Sean Davis
- [BioC] retrieving chromosome lengths using biomaRt?
Sean Davis
- [BioC] converting GEO soft files to MS excel files
Sean Davis
- [BioC] converting GEO soft files to MS excel files
Sean Davis
- [BioC] aCGH across samples
Sean Davis
- [BioC] Combining replicate spots in CGH data
Sean Davis
- [BioC] RMA normalization and MAS5.0 detection calls
Sean Davis
- [BioC] R-2.4.0/bioconductor/darwin kernel version problem
Sean Davis
- [BioC] Compare results from different analysis (Affymetrix)
Sean Davis
- [BioC] Compare results from different analysis (Affymetrix)
Sean Davis
- [BioC] Odds Ratio in GOstat [resolved?]
Sean Davis
- [BioC] Odds Ratio in GOstat [resolved?]
Sean Davis
- [BioC] Compare results from different analysis (Affymetrix)
Sean Davis
- [BioC] Chromosome view of Nimblegen data
Sean Davis
- [BioC] converting GEO soft files to MS excel files
Sean Davis
- [BioC] EST´s mapped to a structural variation region
Sean Davis
- [BioC] [Now off-topic] Chromosome view of Nimblegen data
Sean Davis
- [BioC] linkage analysis
Sean Davis
- [BioC] How to read and normalize hundreds of CEL files?
Sean Davis
- [BioC] merge two tables and filte......
Sean Davis
- [BioC] What is a good method for analyzing differential expression from Illumina BeadStudio summary data?
Todd DeLuca
- [BioC] 2x2 factorial with dye effect, limma design
Thomas Degenkolbe
- [BioC] snapCGH and CGH method evaluation
Ramon Diaz-Uriarte
- [BioC] Combining replicate spots in CGH data
Ramon Diaz-Uriarte
- [BioC] Combining replicate spots in CGH data
Ramon Diaz-Uriarte
- [BioC] How to get the number of Stat pairs used in MAS5
Julie Dickerson
- [BioC] analyzing genomic hybridization data with limma?
Erik Dopman
- [BioC] converting GEO soft files to MS excel files
Dr_Gyorffy_Balazs
- [BioC] Some Genefilter questions
Jenny Drnevich
- [BioC] Some Genefilter questions
Jenny Drnevich
- [BioC] Some Genefilter questions
Jenny Drnevich
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Jenny Drnevich
- [BioC] RMA normalization and MAS5.0 detection calls
Jenny Drnevich
- [BioC] out of memory problem using affycoretools
Jenny Drnevich
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Jenny Drnevich
- [BioC] RMA normalization and MAS5.0 detection calls - correction
Jenny Drnevich
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Jenny Drnevich
- [BioC] gcrma background correction-saving output
Jenny Drnevich
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Jenny Drnevich
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Jenny Drnevich
- [BioC] out of memory problem using affycoretools
Jenny Drnevich
- [BioC] out of memory problem using affycoretools - correction!
Jenny Drnevich
- [BioC] makecdfenv
Jenny Drnevich
- [BioC] trouble hacking plotPCA
Jenny Drnevich
- [BioC] trouble hacking plotPCA
Jenny Drnevich
- [BioC] limma - MA
Jenny Drnevich
- [BioC] symbol to location
Steffen Durinck
- [BioC] simpleaffy question
D.Enrique ESCOBAR ESPINOZA
- [BioC] chip area distortion tolerance
D.Enrique ESCOBAR ESPINOZA
- [BioC] number of digits to the right of the decimal point
D.Enrique ESCOBAR ESPINOZA
- [BioC] snapCGH and CGH method evaluation
João Fadista
- [BioC] Combining replicate spots in CGH data
João Fadista
- [BioC] Combining replicate spots in CGH data
João Fadista
- [BioC] EST´s mapped to a structural variation region
João Fadista
- [BioC] EST´s mapped to a known structural variation region
João Fadista
- [BioC] limma - MA
João Fadista
- [BioC] subset of RG - limma
João Fadista
- [BioC] Plate or print-order effects - limma
João Fadista
- [BioC] GOstat
Seth Falcon
- [BioC] error during installation of genefilter package: "no package 'genefilter' at the repositories"
Seth Falcon
- [BioC] problems with gcrma just.gcrma
Seth Falcon
- [BioC] R-2.4.0/bioconductor/darwin kernel version problem
Seth Falcon
- [BioC] GCRMA with HG-U95A and HG-U95Av2
Seth Falcon
- [BioC] Odds Ratio in GOstat
Seth Falcon
- [BioC] Odds Ratio in GOstat
Seth Falcon
- [BioC] Odds Ratio in GOstat [resolved?]
Seth Falcon
- [BioC] namespace and other developer tools
Seth Falcon
- [BioC] affylmGUI problem with tkcmd
Seth Falcon
- [BioC] Where do I find the golub_Train dataset?
Seth Falcon
- [BioC] Problems with BioConductor 1.9 in R-2.4.1
Seth Falcon
- [BioC] GOENTREZID2GO hard-coded in GOstats:makeGOGraph
Seth Falcon
- [BioC] BioC Advanced Course Jan 10th-12th (Space Still Available)
Seth Falcon
- [BioC] bioconductor
Seth Falcon
- [BioC] aCGH install requied sma
Seth Falcon
- [BioC] aCGH install requied sma
Seth Falcon
- [BioC] Where do I find the golub_Train dataset?
Seth Falcon
- [BioC] hyperG on custermized categories
Seth Falcon
- [BioC] C/C++ function registration mechanism
Holger Fröhlich
- [BioC] Where do I find the golub_Train dataset?
Furge, Kyle
- [BioC] Where do I find the golub_Train dataset?
Furge, Kyle
- [BioC] Some Genefilter questions
Robert Gentleman
- [BioC] AffyRNAdeg: "degradation" or "digestion"?
Robert Gentleman
- [BioC] Odds Ratio in GOstat [resolved?]
Robert Gentleman
- [BioC] Odds Ratio in GOstat [resolved?]
Robert Gentleman
- [BioC] How to read and normalize hundreds of CEL files?
Jeff Gentry
- [BioC] Compare results from different analysis (Affymetrix)
Darlene Goldstein
- [BioC] confused about Mann-Whitney in MTP
Obi Griffith
- [BioC] Problems with BioConductor 1.9 in R-2.4.1
Groot, Philip de
- [BioC] Error installing customer created CDF package
Kasper Daniel Hansen
- [BioC] How to use detect call in GCRMA (or RMA) analysis?
Kasper Daniel Hansen
- [BioC] gcrma background correction
Kasper Daniel Hansen
- [BioC] some mismatches between affymetrix CGOS MAS5 detection calls and BioC mas5calls
Kasper Daniel Hansen
- [BioC] Where do I find the golub_Train dataset?
Kasper Daniel Hansen
- [BioC] Rgraphviz update for BioC 1.9
Kasper Daniel Hansen
- [BioC] RMA question
Harbron, Chris
- [BioC] Comparing to background
Wolfgang Huber
- [BioC] standard deviation from log to normal scale???
Wolfgang Huber
- [BioC] makecdfenv
Wolfgang Huber
- [BioC] silly lm and anova question
Wolfgang Huber
- [BioC] ExpressionSet, fitPLM confusion
Wolfgang Huber
- [BioC] How to use a string as an environment name in mget?
Wolfgang Huber
- [BioC] Error in loess normalization
Wolfgang Huber
- [BioC] RMA question
Wolfgang Huber
- [BioC] Developer Meeting in Lausanne CH 4.+5. April 2007
Wolfgang Huber
- [BioC] problems when connecting to biomaRt database
Wolfgang Huber
- [BioC] problems when connecting to biomaRt database
Lina Hultin-Rosenberg
- [BioC] Affy! From raw data files to Summary expression value without expresso!
Höning, Gunther
- [BioC] symbol to location
Rafael A Irizarry
- [BioC] symbol to location
Rafael A Irizarry
- [BioC] Help:How to do normalization with Ambion bioarray data?
Al Ivens
- [BioC] out of memory problem using affycoretools
Al Ivens
- [BioC] read.maimages: median intesities instead of mean
Lakshmanan Iyer
- [BioC] How to use detect call in GCRMA (or RMA) analysis?
Jianping Jin
- [BioC] problem with hist.default in affystart in package affycoretools
Kimpel, Mark William
- [BioC] problem with hist.default in affystart in package affycoretools
Kimpel, Mark William
- [BioC] limma - MA
Hans-Ulrich Klein
- [BioC] RMA question
Dennis Kostka
- [BioC] Creation of AffyBatch object
Karin Lagesen
- [BioC] Reference on linear models
Katherine Lawler
- [BioC] OPERON human v3 library
Nianhua Li
- [BioC] GO 1.13.0
Nianhua Li
- [BioC] AnnBuilder error: parseData can't access some tmp file
Nianhua Li
- [BioC] Limma with block and replicate measurement
Yanyan Li
- [BioC] Limma with block and replicate measurement
Yanyan Li
- [BioC] fetch filen names
James W. MacDonald
- [BioC] How to get the number of Stat pairs used in MAS5
James W. MacDonald
- [BioC] Probe Interrogation Positions of Affy chips
James W. MacDonald
- [BioC] Some Genefilter questions
James W. MacDonald
- [BioC] How to get the number of Stat pairs used in MAS5
James W. MacDonald
- [BioC] 2fold sigchanges from limma
James W. MacDonald
- [BioC] problems with gcrma just.gcrma
James W. MacDonald
- [BioC] retrieving chromosome lengths using biomaRt?
James W. MacDonald
- [BioC] Affy! From raw data files to Summary expression value without expresso!
James W. MacDonald
- [BioC] problems with gcrma just.gcrma
James W. MacDonald
- [BioC] problems with gcrma just.gcrma
James W. MacDonald
- [BioC] RMA normalization and MAS5.0 detection calls
James W. MacDonald
- [BioC] RMA normalization and MAS5.0 detection calls
James W. MacDonald
- [BioC] comparing different batches of data directly
James W. MacDonald
- [BioC] GCRMA with HG-U95A and HG-U95Av2
James W. MacDonald
- [BioC] simpleaffy question
James W. MacDonald
- [BioC] simpleaffy question
James W. MacDonald
- [BioC] Compare results from different analysis (Affymetrix)
James W. MacDonald
- [BioC] variation in output -using gcrma: bg correction
James W. MacDonald
- [BioC] Odds Ratio in GOstat
James W. MacDonald
- [BioC] chip area distortion tolerance
James W. MacDonald
- [BioC] chip area distortion tolerance
James W. MacDonald
- [BioC] trouble hacking plotPCA
James W. MacDonald
- [BioC] ExpressionSet, fitPLM confusion
James W. MacDonald
- [BioC] namespace and other developer tools
James W. MacDonald
- [BioC] Chromosome view of Nimblegen data
James W. MacDonald
- [BioC] CDF and Annotation-GeneChip Porcine Genome Array
James W. MacDonald
- [BioC] number of digits to the right of the decimal point
James W. MacDonald
- [BioC] affycoretools
James W. MacDonald
- [BioC] How to read and normalize hundreds of CEL files?
James W. MacDonald
- [BioC] affycoretools
James W. MacDonald
- [BioC] affycoretools
James W. MacDonald
- [BioC] affycoretools
James W. MacDonald
- [BioC] RODBC and odbcConnectExcel
James W. MacDonald
- [BioC] problem with hist.default in affystart in package affycoretools
James W. MacDonald
- [BioC] problems with gcrma just.gcrma
Elisabetta Manduchi
- [BioC] problems with gcrma just.gcrma
Elisabetta Manduchi
- [BioC] problems with gcrma just.gcrma
Elisabetta Manduchi
- [BioC] problems with gcrma just.gcrma
Elisabetta Manduchi
- [BioC] CDF and Annotation-GeneChip Porcine Genome Array
Angeles Jiménez Marín
- [BioC] some mismatches between affymetrix CGOS MAS5 detection calls and BioC mas5calls
Morten Mattingsdal
- [BioC] topTable vs decideTests
Morten Mattingsdal
- [BioC] Some Genefilter questions
Claus Mayer
- [BioC] Some Genefilter questions
Amy Mikhail
- [BioC] Some Genefilter questions
Amy Mikhail
- [BioC] Some Genefilter questions
Amy Mikhail
- [BioC] affylmGUI problem with tkcmd
Wonjong Moon
- [BioC] affylmGUI problem with tkcmd
Wonjong Moon
- [BioC] makecdfenv
Martin Morgan
- [BioC] makecdfenv
Martin Morgan
- [BioC] trouble hacking plotPCA
Martin Morgan
- [BioC] R News, volume 6, issue 5 is now available
Paul Murrell
- [BioC] comparing different batches of data directly
Kamila Naxerova
- [BioC] difference between annotation
Michal Okoniewski
- [BioC] Where do I find the golub_Train dataset?
Benjamin Otto
- [BioC] Where do I find the golub_Train dataset?
Benjamin Otto
- [BioC] Where do I find the golub_Train dataset?
Benjamin Otto
- [BioC] AnnBuilder error: parseData can't access some tmp file
Benjamin Otto
- [BioC] ExpressionSet, fitPLM confusion
Georg Otto
- [BioC] Trouble with gcrma background correction
Herve Pages
- [BioC] grid package
Herve Pages
- [BioC] Some Genefilter questions
David K Pritchard
- [BioC] RODBC and odbcConnectExcel
Wolfgang Raffelsberger
- [BioC] Normalization Between Arrays for common reference, time course and two color direct designs.
Vinoy Kumar Ramachandran
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Vinoy Kumar Ramachandran
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Vinoy Kumar Ramachandran
- [BioC] How to add additional annotation column in MA.list or results.fit
Vinoy Kumar Ramachandran
- [BioC] comparing different batches of data directly
Sabine Reichelt
- [BioC] silly lm and anova question
Pedro López Romero
- [BioC] Chromosome view of Nimblegen data
Rustici, Gabriella (NIH/NCI) [F]
- [BioC] standard deviation from log to normal scale???
Jesper Ryge
- [BioC] LIMMA makeContrasts question
T S
- [BioC] GCRMA with HG-U95A and HG-U95Av2
Nicolas STRANSKY
- [BioC] GCRMA with HG-U95A and HG-U95Av2
Nicolas STRANSKY
- [BioC] GCRMA with HG-U95A and HG-U95Av2
Nicolas STRANSKY
- [BioC] RMA normalization and MAS5.0 detection calls
Sarwar, Rizwan
- [BioC] affylmGUI problem with tkcmd
Keith Satterley
- [BioC] RMA question
Lana Schaffer
- [BioC] linkage analysis
Theresa Scharl
- [BioC] GOENTREZID2GO hard-coded in GOstats:makeGOGraph
Paul Shannon
- [BioC] hyperG on custermized categories
Weiwei Shi
- [BioC] C/C++ function registration mechanism
Oleg Sklyar
- [BioC] limma duplicateCorrelation question
Gordon Smyth
- [BioC] Limma with block and replicate measurement
Gordon Smyth
- [BioC] LIMMA makeContrasts question
Gordon Smyth
- [BioC] 2fold sigchanges from limma
Gordon Smyth
- [BioC] AffyRNAdeg: "degradation" or "digestion"?
Gordon Smyth
- [BioC] read.maimages: median intesities instead of mean
Gordon Smyth
- [BioC] Reference on linear models [was LIMMA makeContrasts question]
Gordon Smyth
- [BioC] Separate Channel Analysis of Two-Color Data
Gordon Smyth
- [BioC] Separate Channel Analysis of Two-Color Data
Gordon K Smyth
- [BioC] retrieving chromosome lengths using biomaRt?
Shamit Soneji
- [BioC] difference between annotation
Maria Stalteri
- [BioC] Greek characters and subscripts in network graphs
Martin Henry H. Stevens
- [BioC] (no subject)
Charlyn Suarez
- [BioC] HGU133 spike-in
Talloen, Willem [PRDBE]
- [BioC] Error installing customer created CDF package
Tan, Ruimin
- [BioC] Error installing customer created CDF package
Tan, Ruimin
- [BioC] chip area distortion tolerance
Thalacker-Mercer, Anna E
- [BioC] reference signal equal to 0
Yolande Tra
- [BioC] gcrma background correction
Sucheta Tripathy
- [BioC] gcrma background correction-saving output
Sucheta Tripathy
- [BioC] gcrma background correction-saving output
Sucheta Tripathy
- [BioC] gcrma background correction-saving output
Sucheta Tripathy
- [BioC] variation in output -using gcrma: bg correction
Sucheta Tripathy
- [BioC] Integrating FOSS genomics and FOSS clinical applications
Fred Trotter
- [BioC] How to use a string as an environment name in mget?
Jarno Tuimala
- [BioC] Odds Ratio in GOstat [resolved?]
Björn Usadel
- [BioC] limma duplicateCorrelation question
Karen Vranizan
- [BioC] BIRD 07 call for particpation
Prof. Roland Wagner
- [BioC] BIDM Call for papers
Prof. Roland Wagner
- [BioC] R-2.4.0/bioconductor/darwin kernel version problem
Charlie Whittaker
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Weiyin Zhou
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
Weiyin Zhou
- [BioC] GO 1.13.0
Weiyin Zhou
- [BioC] GO 1.13.0
Weiyin Zhou
- [BioC] affycoretools
Weiyin Zhou
- [BioC] affycoretools
Weiyin Zhou
- [BioC] affycoretools
Weiyin Zhou
- [BioC] affycoretools
Weiyin Zhou
- [BioC] affycoretools
Weiyin Zhou
- [BioC] affycoretools
Weiyin Zhou
- [BioC] merge two tables and filte......
Weiyin Zhou
- [BioC] Help:How to do normalization with Ambion bioarray data?
julin at aecom.yu.edu
- [BioC] RBGL installation on Ubuntu 6.10
lgautier at altern.org
- [BioC] problems with gcrma just.gcrma
lgautier at altern.org
- [BioC] Question about Li&Wong normalization
lgautier at altern.org
- [BioC] problems with gcrma just.gcrma
lgautier at altern.org
- [BioC] problems with gcrma just.gcrma
lgautier at altern.org
- [BioC] some mismatches between affymetrix CGOS MAS5 detection calls and BioC mas5calls
lgautier at altern.org
- [BioC] Probe Interrogation Positions of Affy chips
botto
- [BioC] LIMMA makeContrasts question
J.delasHeras at ed.ac.uk
- [BioC] Array normalisation with Limma: would this be reasonable?
J.delasHeras at ed.ac.uk
- [BioC] Array normalisation with Limma: would this be reasonable?
J.delasHeras at ed.ac.uk
- [BioC] simpleaffy question
J.delasHeras at ed.ac.uk
- [BioC] simpleaffy question
J.delasHeras at ed.ac.uk
- [BioC] How to add additional annotation column in MA.list or results.fit
J.delasHeras at ed.ac.uk
- [BioC] Chromosome view of Nimblegen data
J.delasHeras at ed.ac.uk
- [BioC] Plate or print-order effects - limma
J.delasHeras at ed.ac.uk
- [BioC] LIMMA makeContrasts question
kfbargad at ehu.es
- [BioC] Question about Li&Wong normalization
Malick.PAYE at eu.biomerieux.com
- [BioC] "alt splice ANOVA like"
Malick.PAYE at eu.biomerieux.com
- [BioC] RMA Question
MPorter at genelogic.com
- [BioC] finding cliques with packages Graph and RBGL
lilong at isb-sib.ch
- [BioC] finding cliques with packages Graph and RBGL
lilong at isb-sib.ch
- [BioC] finding cliques with packages Graph and RBGL
lilong at isb-sib.ch
- [BioC] Error in loess normalization
claudio.is at libero.it
- [BioC] How to add additional annotation column in MA.list orresults.fit
J.Oosting at lumc.nl
- [BioC] How to use detect call in GCRMA (or RMA) analysis?
Wang mingyi
- [BioC] Open position "Clinical Genomics Statistician" at Novartis Basel Switzerland
martin.schumacher at novartis.com
- [BioC] difference between annotation
gregory voisin
- [BioC] webbioc install on linux redhat FC4
haiyan wu
- [BioC] RMA normalization and MAS5.0 detection calls
haiyan wu
- [BioC] some mismatches between affymetrix CGOS MAS5 detection calls and BioC mas5calls
haiyan wu
- [BioC] some mismatches between affymetrix CGOS MAS5 detection calls and BioC mas5calls
haiyan wu
- [BioC] Normalization between arrays for common reference, time course and direct two color designs
yanju
- [BioC] grid package
yanju
- [BioC] aCGH install requied sma
zhu zhidong
- [BioC] aCGH install requied sma
zhu zhidong
- [BioC] Compare results from different analysis (Affymetrix)
Ingrid H. G. Østensen
- [BioC] Compare results from different analysis (Affymetrix)
Ingrid H. G. Østensen
- [BioC] Compare results from different analysis (Affymetrix)
Ingrid H. G. Østensen
- [BioC] Compare results from different analysis (Affymetrix)
Ingrid H. G. Østensen
- [BioC] topTable vs decideTests
Ingrid H. G. Østensen
Last message date:
Sat Dec 30 02:42:15 CET 2006
Archived on: Tue Jan 2 17:44:44 CET 2007
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