August 2008 Archives by date
Starting: Fri Aug 1 01:35:35 CEST 2008
Ending: Sun Aug 31 07:03:01 CEST 2008
Messages: 318
- [BioC] bovine Annotation package(s)
Marc Carlson
- [BioC] oligo package - affymetrix tiling arrays.
Lavinia Gordon
- [BioC] oligo package - affymetrix tiling arrays.
Mark Robinson
- [BioC] Adding a text label to the classvec colour bar in heatplot
Kasper Daniel Hansen
- [BioC] Can limma be used to the matched data?
Gordon K Smyth
- [BioC] Adding a text label to the classvec colour bar in heatplot
Mikhail, Amy
- [BioC] GEOquery::parseGEO throws error reading file
Sean Davis
- [BioC] [Flickr] MYSTERY SHOPPER !!! wants you to see a photo
MYSTERY SHOPPER !!! (via Flickr)
- [BioC] Online Banking Update
Lloyds Tsb Bank
- [BioC] Hexbin equivalents for xlim and yim
Gregory Warnes
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Deanne Taylor
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Pierre-Yves
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Martin Morgan
- [BioC] GOTERM in GO.db returns NULL
Shi, Tao
- [BioC] Question about "structure_exon_chrom_end" attributes in biomaRt
steffen at stat.Berkeley.EDU
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Scott Markel
- [BioC] biomaRt:getBM error when query is large
Shi, Tao
- [BioC] biomaRt:getBM error when query is large
steffen at stat.Berkeley.EDU
- [BioC] biomaRt:getBM error when query is large
Shi, Tao
- [BioC] GEOquery::parseGEO throws error reading file
Gad Abraham
- [BioC] Adding a text label to the classvec colour bar in heatplot
Kasper Daniel Hansen
- [BioC] heatmap and cdfenv problems
lgautier at altern.org
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Paul Geeleher
- [BioC] black lokal lädt dich zu den lokalisten ein.
friends at lokalisten.de
- [BioC] Bioconductor Digest, Vol 66, Issue 2 Message 7 (apologies; long and veering off topic)
Ross Lazarus
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Mark Cowley
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Ross Lazarus
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Oleg Sklyar
- [BioC] makePDPackage problem? -- Affy promoter arrays
Mark Robinson
- [BioC] makePDPackage problem? -- Affy promoter arrays
Mark Robinson
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Jarno Tuimala
- [BioC] Analysis of microfluidic card qPCR data
Bas Jansen
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Herve Pages
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Michal Blazejczyk
- [BioC] limma and duplicate correlation
Yolande Tra
- [BioC] GOTERM in GO.db returns NULL
Marc Carlson
- [BioC] problems with GenomeGraphs
steffen at stat.Berkeley.EDU
- [BioC] problems with GenomeGraphs
Steve Lianoglou
- [BioC] problems with GenomeGraphs
Steve Lianoglou
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Mark Cowley
- [BioC] limma and duplicate correlation
Mark Cowley
- [BioC] makePDPackage problem? -- Affy promoter arrays
Mark Robinson
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Mark Cowley
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Henrik Bengtsson
- [BioC] attributes in GenomeGraphs
Amanda Miotto
- [BioC] attributes in GenomeGraphs
Mark Robinson
- [BioC] An importMAGEML problem in RMAGEML Package
Haonan WU
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Ross Lazarus
- [BioC] An importMAGEML problem in RMAGEML Package
Wolfgang Huber
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
Ross Lazarus
- [BioC] pairwise.comparison invalid object for slot "pData"
David Ruau
- [BioC] pairwise.comparison invalid object for slot "pData"
Martin Morgan
- [BioC] Question on Affxparser (createCel)
Hooiveld, Guido
- [BioC] Question on Affxparser (createCel)
Henrik Bengtsson
- [BioC] MAQC samples on Affymarix Exon array
Weiyin Zhou
- [BioC] array weights in siggenes
Payton, Rebecca R
- [BioC] 2 Courses*** R/Splus Advanced Programming : August 14-15 in Seattle ! by XLSolutions Corp
sue at xlsolutions-corp.com
- [BioC] copy number for Affy 6.0
Rob Scharpf
- [BioC] copy number for Affy 6.0
Henrik Bengtsson
- [BioC] pairwise.comparison invalid object for slot "pData"
Crispin Miller
- [BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?
ilhami visne
- [BioC] siggenes failure
Louisa A Rispoli/AS/EXP/UTIA
- [BioC] odd results with pvclust
asl at tmail.lanl.gov
- [BioC] Problem in using "rtracklayer' package
LiGang
- [BioC] QC report
Yisong Zhen
- [BioC] Problems installing bioconductor on ubuntu
Rebecca
- [BioC] Problem in using "rtracklayer' package
Michael Lawrence
- [BioC] Use of bioinformatics meeting room (fwd)
Gordon K Smyth
- [BioC] drinks anyone?
Gordon K Smyth
- [BioC] drinks anyone?
Gordon K Smyth
- [BioC] drinks anyone?
Kort, Eric
- [BioC] how to fastest go from Affymetrix HGU-133 Plus 2.0 chip tiff files to cel files?
Johan Lindberg
- [BioC] attributes in GenomeGraphs
steffen at stat.Berkeley.EDU
- [BioC] ANNOUNCEMENT: 20% Discount on Books from Chapman & Hall/CRC!
Thomas, Judy
- [BioC] RMA on a batch with NA values
Tarca, Adi
- [BioC] Comprehensive Healthcare List
pundit
- [BioC] ABPkgBuilder question
Kamila Naxerova
- [BioC] how to fastest go from Affymetrix HGU-133 Plus 2.0 chip tiff files to cel files?
Henrik Bengtsson
- [BioC] topTable; fold-change and data extraction
Wijchers, Patrick
- [BioC] topTable; fold-change and data extraction
Thomas Hampton
- [BioC] cdf file
Jan.Shaw at csiro.au
- [BioC] preparing packages for use with R and Bioconductor
Srinivasan Ramachandran
- [BioC] cdf file
Mark Robinson
- [BioC] same value in an affy exprset
Francesco Romeo
- [BioC] Using biomaRt to check probe locations
Nathan Harmston
- [BioC] RMA on a batch with NA values
James W. MacDonald
- [BioC] same value in an affy exprset
James W. MacDonald
- [BioC] Using biomaRt to check probe locations
James W. MacDonald
- [BioC] preparing packages for use with R and Bioconductor
Sean Davis
- [BioC] Using biomaRt to check probe locations
Sean Davis
- [BioC] preparing packages for use with R and Bioconductor
James W. MacDonald
- [BioC] Limma-design matrix for technical replication
Kateřina Kepková
- [BioC] ABPkgBuilder question
Marc Carlson
- [BioC] pd.hg18.60mer.expr_1.1.1 and Nimblegen data for oligo
Bramoulle Alexandre
- [BioC] Using biomaRt to check probe locations
lgautier at altern.org
- [BioC] LIMMA - within and between array technical replicates
Dries Knapen
- [BioC] {Spam?} Re: RMA on a batch with NA values
Tarca, Adi
- [BioC] Extracting Intensities from LIMMA with Reference Design
Lin Huffman
- [BioC] question about pamr.listgenes ....
ALok
- [BioC] RegGrn - illumina metrics file
Yogi Sundaravadanam
- [BioC] {Spam?} Re: RMA on a batch with NA values
Kasper Daniel Hansen
- [BioC] RegGrn - illumina metrics file
Wei Shi
- [BioC] GenomeGraphs
Amanda Miotto
- [BioC] Marts downloads
Amanda Miotto
- [BioC] problem with tkrplot installation
A Yulandi
- [BioC] Agilent MAGE-ML
gabriele bucci
- [BioC] Link to picture: Comparison of diff. t-statistics, Limma and rowttests
Boel Brynedal
- [BioC] problem with tkrplot installation
James W. MacDonald
- [BioC] limits/thresholds for arrayWeights in the limma package
Radek Blatny
- [BioC] (no subject)
Radek Blatny
- [BioC] Limma-design matrix for technical replication
Jenny Drnevich
- [BioC] (no subject)
Sean Davis
- [BioC] gcrma problem
Glyn Bradley
- [BioC] ai<-compute.affinities(mm430mmentrezg7)
Radek Blatny
- [BioC] ai<-compute.affinities(mm430mmentrezg7)
Radek Blatny
- [BioC] gcrma problem
James W. MacDonald
- [BioC] ai<-compute.affinities(mm430mmentrezg7)
James W. MacDonald
- [BioC] missing value
Yisong Zhen
- [BioC] missing value
Robert Gentleman
- [BioC] KEGG annotations for worm (c. elegans)
Sara Calafell Gosline
- [BioC] 3 Courses*** R/Splus Fundamentals and Programming Techniques: September 2008 at 3 locations by XLSolutions Corp
sue at xlsolutions-corp.com
- [BioC] Quality control;Missing value;installation
Yisong Zhen
- [BioC] Quality control;Missing value;installation
Steve Lianoglou
- [BioC] How to save result from limma
Wang, Jixin
- [BioC] missing value
Herve Pages
- [BioC] Quality control;Missing value;installation
Robert Gentleman
- [BioC] How to save result from limma
Jenny Drnevich
- [BioC] How to save result from limma
Wang, Jixin
- [BioC] How to save result from limma
James W. MacDonald
- [BioC] KEGG annotations for worm (c. elegans)
Marc Carlson
- [BioC] How to save result from limma
Cei Abreu-Goodger
- [BioC] How to save result from limma
Jenny Drnevich
- [BioC] How to save result from limma
Wang, Jixin
- [BioC] How to save result from limma
Gordon K Smyth
- [BioC] {Spam?} Re: RMA on a batch with NA values
Henrik Bengtsson
- [BioC] How to save result from limma
Wang, Jixin
- [BioC] problem with tkrplot installation
A Yulandi
- [BioC] limits/thresholds for arrayWeights in the limma package
Matt Ritchie
- [BioC] Limma-design matrix for technical replication
Gordon K Smyth
- [BioC] Quality control;Missing value;installation
Yisong Zhen
- [BioC] Quality control;Missing value;installation
Mark Cowley
- [BioC] How to save result from limma
J.delasHeras at ed.ac.uk
- [BioC] How to save result from limma
Jenny Drnevich
- [BioC] DNAcopy segments.p function / Scoring CNVs
marco zucchelli
- [BioC] BioC2008 Talks and Lab Materials?
Jenny Drnevich
- [BioC] BioC2008 Talks and Lab Materials?
Florian Hahne
- [BioC] difference between rmaPLM and default fitPLM?
Jenny Drnevich
- [BioC] difference between rmaPLM and default fitPLM?
Jenny Drnevich
- [BioC] library(affyQCReport)-NA(arg1); arrayQualityMetrics-no end
Yisong Zhen
- [BioC] GenomeGraphs
Amanda Miotto
- [BioC] How to save result from limma
Gordon K Smyth
- [BioC] difference between rmaPLM and default fitPLM?
Ben Bolstad
- [BioC] library(affyQCReport)-NA(arg1); arrayQualityMetrics-no end
Robert Gentleman
- [BioC] difference between rmaPLM and default fitPLM?
Richard Pearson
- [BioC] Analysis tips for two-color oligo arrays with common reference and dye swap
Arun Kommadath
- [BioC] Analysis tips for two-color oligo arrays with commonreference and dye swap
Paul Leo
- [BioC] limma design and biolrep matrix, duplicateCorrelation
Glyn Bradley
- [BioC] GenomeGraphs
steffen at stat.Berkeley.EDU
- [BioC] Can't access biomaRt with mysql
Richard Pearson
- [BioC] Marts downloads
steffen at stat.Berkeley.EDU
- [BioC] limma warning: Estimation of var.prior failed
Georg Otto
- [BioC] difference between rmaPLM and default fitPLM?
Jenny Drnevich
- [BioC] black lokal lädt dich zu den lokalisten ein.
friends at lokalisten.de
- [BioC] ReadAffy crashes on mac
Nathan S. Watson-Haigh
- [BioC] ReadAffy crashes on mac
Ben Bolstad
- [BioC] ReadAffy crashes on mac
Nathan S. Watson-Haigh
- [BioC] Using probes2table without affy probeset IDs
Ingileif B. Hallgrimsdottir
- [BioC] BiomaRt annotation for the affy6.0 snps
marco zucchelli
- [BioC] Using probes2table without affy probeset IDs
James W. MacDonald
- [BioC] BiomaRt annotation for the affy6.0 snps
Anguraj Sadanandam
- [BioC] Error with normexp in limma background correction
Augusto Rendon
- [BioC] General question about library files
John O. Woods
- [BioC] makePdInfoPackage failure
John O. Woods
- [BioC] Error with normexp in limma background correction
Gordon K Smyth
- [BioC] Understanding the randomness of Biomart
Nathan Harmston
- [BioC] Understanding the randomness of Biomart
Nathan Harmston
- [BioC] Combining gdPlot and matplot images
Amanda Miotto
- [BioC] General question about library files
James W. MacDonald
- [BioC] SNPs data analysis
Mondher GATRI
- [BioC] Sc03b_MR_v04 CDF package
Ludo Muller
- [BioC] General question about library files
Henrik Bengtsson
- [BioC] General question about library files
Steve Lianoglou
- [BioC] Illumina BeadChips and beadarray
Ina Hoeschele
- [BioC] biomaRt question -- not getting a gene
Elizabeth Purdom
- [BioC] Compare subsets using only probesets mapped to chromosome 10
Martin McCabe
- [BioC] exonmap question: rma (& plier) crashes
Tae-Hoon Chung
- [BioC] Illumina BeadChips and beadarray
Matt Ritchie
- [BioC] GenomeGraphs alternate input
Amanda Miotto
- [BioC] exonmap question: rma (& plier) crashes
Crispin Miller
- [BioC] Compare subsets using only probesets mapped to chromosome 10
James W. MacDonald
- [BioC] Sc03b_MR_v04 CDF package
James W. MacDonald
- [BioC] How to save result from limma
Jenny Drnevich
- [BioC] Sc03b_MR_v04 CDF package
Ludo Muller
- [BioC] Problems installing AnnotationDbi on RHEL4 using biocLite
michael watson (IAH-C)
- [BioC] HELP package
Paul Hammer
- [BioC] errors usage of local biomart database with biomaRt package
Faheem Mitha
- [BioC] Problems installing AnnotationDbi on RHEL4 using biocLite
Marc Carlson
- [BioC] GenomeGraphs alternate input
James Bullard
- [BioC] HELP package
Henrik Bengtsson
- [BioC] HELP package
Paul Hammer
- [BioC] How to save result from limma
Gordon K Smyth
- [BioC] RSQLite installation question
Tae-Hoon Chung
- [BioC] Two cDNA arrays whose samples are the same but probes are not
Seungwoo Hwang
- [BioC] SNP chips
Yogi Sundaravadanam
- [BioC] exonmap question: rma (& plier ) crashes conti.
Tae-Hoon Chung
- [BioC] question about biomaRt attributes
Elizabeth Purdom
- [BioC] Project Enquiry!
Kat
- [BioC] exonmap question: rma (& plier ) crashes conti.
Tae-Hoon Chung
- [BioC] Staff Position at EBI: Computational Scientist / Bioconductor
Wolfgang Huber
- [BioC] Problem reading quantarray files
michael waisberg
- [BioC] Agilent MAGE-ML
Martin Morgan
- [BioC] question about biomaRt attributes
Elizabeth Purdom
- [BioC] filtering Illumina data
Lana Schaffer
- [BioC] filtering Illumina data
Sean Davis
- [BioC] filtering Illumina data
Lana Schaffer
- [BioC] filtering Illumina data
Wei Shi
- [BioC] filtering Illumina data
Paul Leo
- [BioC] transcript numbers
Amanda Miotto
- [BioC] Background values
Louisa A Rispoli/AS/EXP/UTIA
- [BioC] biomaRt question -- not getting a gene
steffen at stat.Berkeley.EDU
- [BioC] Understanding the randomness of Biomart
steffen at stat.Berkeley.EDU
- [BioC] ANNOUNCEMENT: 20% Discount on Books from Chapman & Hall/CRC!
Thomas, Judy
- [BioC] allen brain atlas
Radek Blatny
- [BioC] SNP chips
marco zucchelli
- [BioC] CSIE 2009, Los Angeles, Submissions: September 30
Hongping Wu
- [BioC] Background values
Wolfgang Huber
- [BioC] Agilent MAGE-ML
Wolfgang Huber
- [BioC] Agilent time course with technical replicates, differential expression using Limma
Matt Huska
- [BioC] boxplot of subset of PLMset
Rebecca tagett
- [BioC] Sc03b_MR_v04 CDF package
James W. MacDonald
- [BioC] How to extract log ratios from two color arrays
Heike Pospisil
- [BioC] How to extract log ratios from two color arrays
Heike Pospisil
- [BioC] SNP chips
Robert Gentleman
- [BioC] allen brain atlas
Martin Morgan
- [BioC] similarity between two gene lists with varied length
Weiwei Shi
- [BioC] similarity between two gene lists with varied length
Shannon, William
- [BioC] similarity between two gene lists with varied length
Weiwei Shi
- [BioC] similarity between two gene lists with varied length
Seth Falcon
- [BioC] similarity between two gene lists with varied length
Wolfgang Huber
- [BioC] similarity between two gene lists with varied length
Cesare Furlanello
- [BioC] similarity between two gene lists with varied length
xie weibo
- [BioC] similarity between two gene lists with varied length
Claudio Lottaz
- [BioC] GO over representation analysis
Heike Pospisil
- [BioC] suggest permutation methods
Paul Leo
- [BioC] allen brain atlas
Radek Blatny
- [BioC] GO over representation analysis
Joern Toedling
- [BioC] similarity between two gene lists with varied length
Deanne Taylor
- [BioC] allen brain atlas
Martin Morgan
- [BioC] allen brain atlas
Radek Blatny
- [BioC] Problems loading SparseM
Heike Pospisil
- [BioC] exonmap question: rma (& plier ) crashes conti.
Michal Okoniewski
- [BioC] GO over representation analysis
Marc Carlson
- [BioC] Problems loading SparseM
Sean Davis
- [BioC] Illumina BeadChips and beadarray
Ina Hoeschele
- [BioC] Problems loading SparseM
Henrik Bengtsson
- [BioC] "start" filter in biomaRt
Shi, Tao
- [BioC] "start" filter in biomaRt
steffen at stat.Berkeley.EDU
- [BioC] Illumina BeadChips and beadarray
Ina Hoeschele
- [BioC] "start" filter in biomaRt
Shi, Tao
- [BioC] problem with makePDpackage, geometry issue
Brian Herb
- [BioC] Error in X11(paste("png::", filename, sep = ""),
Yisong Zhen
- [BioC] Error in X11(paste("png::", filename, sep = ""),
Henrik Bengtsson
- [BioC] Illumina BeadChips and beadarray
Matt Ritchie
- [BioC] How to use CRLMM with Affy 5.0 arrays
Dominik Seelow
- [BioC] Illumina BeadChips and beadarray
Wolfgang Huber
- [BioC] How to use CRLMM with Affy 5.0 arrays
Benilton Carvalho
- [BioC] How to use CRLMM with Affy 5.0 arrays
Dominik Seelow
- [BioC] How to use CRLMM with Affy 5.0 arrays
Benilton Carvalho
- [BioC] Questions regarding lumi
Ingrid H. G. Østensen
- [BioC] DNAString: Error for long sequences
Ann Hess
- [BioC] LumiBatch - Error in creating lumi object
Sharon
- [BioC] Illumina BeadChips and beadarray
Ina Hoeschele
- [BioC] Illumina BeadChips and beadarray
Matt Ritchie
- [BioC] Cluster and classification research ggrad students
William Shannon
- [BioC] Illumina BeadChips and beadarray
Matt Ritchie
- [BioC] codelink analysis
Diao,Lixia
- [BioC] codelink analysis
Diego Diez
- [BioC] DNAString: Error for long sequences
Martin Morgan
- [BioC] Project Enquiry!
Kat
- [BioC] Importing "Detailed sample annotation" from ArrayExpress DB into R
Markus Schmidberger
- [BioC] Importing "Detailed sample annotation" from ArrayExpress DB into R
Markus Schmidberger
- [BioC] LumiBatch - Error in creating lumi object
Pan Du
- [BioC] query about RNA degradation plot
Manisha Brahmachary
- [BioC] query about RNA degradation plot
Jenny Drnevich
- [BioC] Sc03b_MR_v04 CDF package
Ludo Muller
- [BioC] Sc03b_MR_v04 CDF package
James W. MacDonald
- [BioC] Sc03b_MR_v04 CDF package
Henrik Bengtsson
- [BioC] limma background correction
Artur Veloso
- [BioC] limma background correction
Gordon K Smyth
- [BioC] Importing "Detailed sample annotation" from ArrayExpress DB into R
audrey
- [BioC] errors with attempted installation of package affxparser
Mark Kimpel
- [BioC] errors with attempted installation of package affxparser
Kasper Daniel Hansen
- [BioC] errors with attempted installation of package affxparser
Mark Kimpel
- [BioC] errors with attempted installation of package affxparser
Kasper Daniel Hansen
- [BioC] Array quality question
Oliver Hofmann
- [BioC] errors with attempted installation of package affxparser
Henrik Bengtsson
- [BioC] errors with attempted installation of package affxparser
Kasper Daniel Hansen
- [BioC] Hierarchical clustering of RMA data
Ryan Kirkbride
- [BioC] ENSG00000007968 broken
Amanda Miotto
- [BioC] Hierarchical clustering of RMA data
Deanne Taylor
- [BioC] Hierarchical clustering of RMA data
William Shannon
- [BioC] GO over representation analysis
michael watson (IAH-C)
- [BioC] Limma: NaNs in intraspotCorrelation()
Muller, Pie
- [BioC] GO over representation analysis
Sean Davis
- [BioC] GO over representation analysis
James W. MacDonald
- [BioC] GO over representation analysis
michael watson (IAH-C)
- [BioC] GO over representation analysis
James W. MacDonald
- [BioC] GO over representation analysis
michael watson (IAH-C)
- [BioC] GO over representation analysis
James W. MacDonald
- [BioC] Affymetrix rhesus chip annotation file?
Faheem Mitha
- [BioC] ENSG00000007968 broken
Wolfgang Huber
- [BioC] Array quality question
Wolfgang Huber
- [BioC] DNASuffixArray
Gabriel Valiente
- [BioC] DNASuffixArray
Kasper Daniel Hansen
- [BioC] Limma: NaNs in intraspotCorrelation()
Gordon K Smyth
- [BioC] RMAGEML installation and ArrayExpress database
John Lande
- [BioC] affxparser and GCC 4.3
Kasper Daniel Hansen
- [BioC] affxparser and GCC 4.3
Henrik Bengtsson
Last message date:
Sun Aug 31 07:03:01 CEST 2008
Archived on: Sun Aug 31 07:03:15 CEST 2008
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