October 2010 Archives by thread

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Starting: Fri Oct 1 03:06:47 CEST 2010
Ending: Sat Oct 30 14:56:50 CEST 2010
Messages: 512

• [BioC] Several faculty positions in Statistics and Bioinformatics at Penn State   Naomi Altman
• [BioC] AgiMicroRna problems   Mark Cowley
  • [BioC] GOStats: can't find probesets, which are in overrepresented GO term   Mike Walter
    • [BioC] GOStats: can't find probesets, which are in overrepresented GO term   James W. MacDonald
      • [BioC] GOStats: can't find probesets, which are in overrepresented GO term   Mike Walter
• [BioC] RdbiPgSQL installation trouble   Tena Sakai
  • [BioC] RdbiPgSQL installation trouble   Martin Morgan
    • [BioC] RdbiPgSQL installation trouble   Tena Sakai
• [BioC] Unambiguously mapping of affy IDs to gene symbols using hgu133plus2.db   Christian Ruckert
  • [BioC] Unambiguously mapping of affy IDs to gene symbols using hgu133plus2.db   Benjamin Otto
  • [BioC] Unambiguously mapping of affy IDs to gene symbols using hgu133plus2.db   James W. MacDonald
  • [BioC] Unambiguously mapping of affy IDs to gene symbols using hgu133plus2.db   Marc Carlson
• [BioC] Rif: Limma: nestedF and interaction term   MassimoAcquaviva at ospedale-gaslini.ge.it
• [BioC] Rsamtools Memory Issue   Hollis Wright
  • [BioC] Rsamtools Memory Issue   Martin Morgan
    • [BioC] Rsamtools Memory Issue   Hollis Wright
• [BioC] crlmm package and allele-specific CNV with Illumina SNP arrays   Zoppoli, Gabriele (NIH/NCI) [G]
• [BioC] R command readIllumina with beadarray   Hajar Hassani Lahsinoui
  • [BioC] R command readIllumina with beadarray   Tim Triche
  • [BioC] R command readIllumina with beadarray   Matthew Ritchie
    • [BioC] R command readIllumina with beadarray   Hajar Hassani Lahsinoui
• [BioC] Installing Bioconductor on Linux...   James Carman
  • [BioC] Installing Bioconductor on Linux...   Martin Morgan
    • [BioC] Installing Bioconductor on Linux...   James Carman
      • [BioC] Installing Bioconductor on Linux...   Steffen Möller
    • [BioC] Installing Bioconductor on Linux...   Kasper Daniel Hansen
• [BioC] LIMMA-interaction term   MassimoAcquaviva at ospedale-gaslini.ge.it
  • [BioC] LIMMA-interaction term   James W. MacDonald
• [BioC] caught segfault in arrayQualityMetrics   Laurent Gatto
  • [BioC] caught segfault in arrayQualityMetrics   Wolfgang Huber
    • [BioC] caught segfault in arrayQualityMetrics   Martin Morgan
      • [BioC] caught segfault in arrayQualityMetrics   Laurent Gatto
• [BioC] BioMaRt query   René Dreos
  • [BioC] BioMaRt query   Kasper Daniel Hansen
  • [BioC] BioMaRt query   James W. MacDonald
• [BioC] crlmm package and allele-specific CNV with Illumina SNP arrays   Robert Scharpf
• [BioC] Mapping domains to exons   anupam sinha
  • [BioC] Mapping domains to exons   Mark Cowley
    • [BioC] Mapping domains to exons   Marc Carlson
• [BioC] Course announcement: Statistical Methods for mRNA-Seq and ChIP-seq using Bioconductor   Joaquin Dopazo
• [BioC] error in plotKEGGGraph   Robert M. Flight
• [BioC] Simpleaffy problems   James W. MacDonald
• [BioC] R hanging up on install of BioConductor   ANJAN PURKAYASTHA
  • [BioC] R hanging up on install of BioConductor   Vincent Carey
    • [BioC] R hanging up on install of BioConductor   Hollis Wright
      • [BioC] R hanging up on install of BioConductor   Steve Lianoglou
      • [BioC] R hanging up on install of BioConductor   Steve Lianoglou
      • [BioC] R hanging up on install of BioConductor   ANJAN PURKAYASTHA
      • [BioC] R hanging up on install of BioConductor   Dan Tenenbaum
• [BioC] need help in Contrast. Treatment design   Vishnuvardhana, Ashwin [BSD] - SRF
• [BioC] Need help in Anova design (contrast.tratment)   ashwin Vishnuvardhana
• [BioC] help - where to start   Adrian Johnson
  • [BioC] help - where to start   Steve Lianoglou
  • [BioC] help - where to start   Martin Morgan
    • [BioC] help - where to start   Dan Tenenbaum
• [BioC] LIMMA-interaction term   MassimoAcquaviva at ospedale-gaslini.ge.it
• [BioC] Interrupting an R command   January Weiner
  • [BioC] Interrupting an R command   Kasper Daniel Hansen
    • [BioC] 64-bit binary of graphviz for R 2.12.0 (x64)   Fraser Sim
      • [BioC] 64-bit binary of graphviz for R 2.12.0 (x64)   Fraser Sim
• [BioC] limma makeContrasts   Lorenzo Bomba
  • [BioC] limma makeContrasts   Sunny Srivastava
• [BioC] ShortRead qa() for BAM files?   Hollis Wright
  • [BioC] ShortRead qa() for BAM files?   Martin Morgan
• [BioC] x-Tile in R   Samuel Okoye
• [BioC] memory limit   Noemi Andor
  • [BioC] memory limit   Steve Lianoglou
    • [BioC] memory limit   Noe Andor
• [BioC] Need help in Anova design (contrast.tratment)   Gordon K Smyth
• [BioC] limma makeContrasts   Sunny Srivastava
• [BioC] expresso error   ANJAN PURKAYASTHA
  • [BioC] expresso error   Vincent Carey
    • [BioC] expresso error   ANJAN PURKAYASTHA
      • [BioC] expresso error   Vincent Carey
      • [BioC] expresso error   ANJAN PURKAYASTHA
      • [BioC] expresso error   Vincent Carey
• [BioC] help in downloading some packages.   Veerendra GP
  • [BioC] help in downloading some packages.   Michael Dondrup
• [BioC] help in downloading some packages.   Michael Dondrup
• [BioC] Biostrings bug?   arne.mueller at novartis.com
  • [BioC] Biostrings bug?   arne.mueller at novartis.com
    • [BioC] Biostrings bug?   Hervé Pagès
    • [BioC] Biostrings bug?   Hervé Pagès
• [BioC] Error in processing 47 cel files using expresso.   ANJAN PURKAYASTHA
  • [BioC] Error in processing 47 cel files using expresso.   Wolfgang Huber
• [BioC] Illumina QC using ShortRead   Davide Cittaro
  • [BioC] Illumina QC using ShortRead   Martin Morgan
    • [BioC] Illumina QC using ShortRead   Davide Cittaro
      • [BioC] Illumina QC using ShortRead   Martin Morgan
• [BioC] ShortRead for sequencing data quality assessment   heyi xiao
  • [BioC] ShortRead for sequencing data quality assessment   Valerie Obenchain
• [BioC] Setting up the contrast matrix   Supriya Munshaw
• [BioC] Cy5: methylated or unmethylated?   Shi, Tao
  • [BioC] Cy5: methylated or unmethylated?   Sean Davis
    • [BioC] Cy5: methylated or unmethylated?   Shi, Tao
• [BioC] Error using arrayQuality and Agilent txt files   F. Javier López
  • [BioC] Error using arrayQuality and Agilent txt files   Valerie Obenchain
    • [BioC] Error using arrayQuality and Agilent txt files   Valerie Obenchain
      • [BioC] scripted svg - was: Error using arrayQuality and Agilent txt files   Wolfgang Huber
• [BioC] affyPara   danieladna
  • [BioC] affyPara   Valerie Obenchain
• [BioC] ReadAffy() can't read CEL files from TCGA...   Paul Geeleher
  • [BioC] ReadAffy() can't read CEL files from TCGA...   Vincent Carey
  • [BioC] ReadAffy() can't read CEL files from TCGA...   Tim Triche
    • [BioC] ReadAffy() can't read CEL files from TCGA...   Paul Geeleher
      • [BioC] ReadAffy() can't read CEL files from TCGA...   Martin Morgan
      • [BioC] ReadAffy() can't read CEL files from TCGA...   Paul Geeleher
• [BioC] Percentage of Variance to be included at 3D graph of Principal Component Analysis (PCA)- made4 package   John Antony Gaspar
• [BioC] Error: cannot allocate vector of size 2.8 Gb   Changhe Fu
  • [BioC] Error: cannot allocate vector of size 2.8 Gb   Sean Davis
• [BioC] Error: cannot allocate vector of size 2.8 Gb   danieladna
• [BioC] Geoquery problem - GSE file   S T
  • [BioC] Geoquery problem - GSE file   Sean Davis
  • [BioC] Geoquery problem - GSE file   S T
• [BioC] Data from GEO in Methylumi   S T
  • [BioC] Data from GEO in Methylumi   Sean Davis
    • [BioC] Data from GEO in Methylumi   S T
      • [BioC] Data from GEO in Methylumi   Tim Triche
• [BioC] replicable of *PLGEM*   Pavelka, Norman
• [BioC] Ringo for Nimblegen ChIP-chip data in GEO   Yong Li
  • [BioC] Ringo for Nimblegen ChIP-chip data in GEO   Wolfgang Huber
• [BioC] Bioconductor Developer Meeting Europe - 17.-18. 11. 2010   Wolfgang Huber
• [BioC] Fwd: caught segfault in arrayQualityMetrics   Laurent Gatto
• [BioC] Loading data into AgiMicroRna   Stephen Taylor
  • [BioC] Loading data into AgiMicroRna   Neel Aluru
    • [BioC] Loading data into AgiMicroRna   Stephen Taylor
      • [BioC] Loading data into AgiMicroRna   Neel Aluru
      • [BioC] Loading data into AgiMicroRna   Steve Taylor
• [BioC] RMA XPS Problem on MoGene 1.0 ST   Zack Liu
  • [BioC] RMA XPS Problem on MoGene 1.0 ST   cstrato
    • [BioC] RMA XPS Problem on MoGene 1.0 ST   cstrato
      • [BioC] RMA XPS Problem on MoGene 1.0 ST - Solved   cstrato
• [BioC] error fix.by(by.x, x) in Pdinfobuilder package   Michael MOZAR
  • [BioC] error fix.by(by.x, x) in Pdinfobuilder package   Benilton Carvalho
• [BioC] Can gene-set data be a data frame for a package in bioconductor   lan gao
  • [BioC] Can gene-set data be a data frame for a package in bioconductor   Martin Morgan
• [BioC] selecting column with beadarray   Hajar Hassani Lahsinoui
• [BioC] package help   Adrian Johnson
  • [BioC] package help   Wolfgang Huber
• [BioC] help about the GEOquery, Thanks.   Sean Davis
• [BioC] Bug/typo in latest GenomicFeatures (rev 50109)   Steve Lianoglou
  • [BioC] Bug/typo in latest GenomicFeatures (rev 50109)   Martin Morgan
• [BioC] Inconistent behavior with all/any and Rle   Steve Lianoglou
  • [BioC] Inconistent behavior with all/any and Rle   Martin Morgan
    • [BioC] Inconistent behavior with all/any and Rle   Steve Lianoglou
• [BioC] Rsamtools hangs reading SOLiD bam files   Asta Laiho
  • [BioC] Rsamtools hangs reading SOLiD bam files   Martin Morgan
• [BioC] GEOquery question   Sean Davis
• [BioC] spillover method in flowCore package   stacy xu
• [BioC] affypara   danieladna
  • [BioC] affypara   Valerie Obenchain
• [BioC] Gene Ontology: filtering out most informative terms from a list of GO terms   Aaron Weimann
  • [BioC] Gene Ontology: filtering out most informative terms from a list of GO terms   Marc Carlson
• [BioC] Discrepancy in differential expression gene list after intraspotCorrelation   Kachroo, Priyanka
• [BioC] bed file around the TSSs   joseph
  • [BioC] bed file around the TSSs   Vincent Carey
    • [BioC] bed file around the TSSs   Michael Lawrence
    • [BioC] bed file around the TSSs   joseph
      • [BioC] bed file around the TSSs   Vincent Carey
• [BioC] Aniket Mishra wants to stay in touch on LinkedIn   Aniket Mishra
• [BioC] Aniket Mishra wants to stay in touch on LinkedIn   Aniket Mishra
• [BioC] omitted rows using getBM   Mcmahon, Kwyatt
  • [BioC] omitted rows using getBM   Steffen Durinck
    • [BioC] omitted rows using getBM   Mcmahon, Kwyatt
• [BioC] Illumina DGE => sRNA detection pipeline   Oleg Moskvin
  • [BioC] Illumina DGE => sRNA detection pipeline   Steve Lianoglou
  • [BioC] Illumina DGE => sRNA detection pipeline   Sean Davis
• [BioC] Puma question   Manca Marco (PATH)
• [BioC] Error using arrayQuality and Agilent txt files   F. Javier López
  • [BioC] Error using arrayQuality and Agilent txt files   Valerie Obenchain
  • [BioC] Error using arrayQuality and Agilent txt files   F. Javier López
• [BioC] ecoli2.db   Clémentine Dressaire
  • [BioC] ecoli2.db   Marc Carlson
    • [BioC] ecoli2.db   Clémentine Dressaire
      • [BioC] ecoli2.db   Marc Carlson
      • [BioC] ecoli2.db   Clémentine Dressaire
      • [BioC] ecoli2.db   Marc Carlson
      • [BioC] ecoli2.db   Clémentine Dressaire
      • [BioC] ecoli2.db   Marc Carlson
• [BioC] Puma question   Manca Marco (PATH)
  • [BioC] Puma question   Richard Pearson
    • [BioC] R: Puma question   Manca Marco (PATH)
    • [BioC] R: Puma question   Manca Marco (PATH)
      • [BioC] R: Puma question   Richard Pearson
      • [BioC] R: R: Puma question   Manca Marco (PATH)
• [BioC] How many folds?   Marcelo Brandão
  • [BioC] How many folds?   Sean Davis
• [BioC] Limma :: decideTest question   Lorenzo Bomba
• [BioC] EBImage installs but won't load on Mac OS 10.6.4   W. A. Green
  • [BioC] EBImage installs but won't load on Mac OS 10.6.4   Gregoire Pau
    • [BioC] EBImage installs but won't load on Mac OS 10.6.4   Michael Dondrup
      • [BioC] EBImage installs but won't load on Mac OS 10.6.4   W. A. Green
• [BioC] Illumina DGE => sRNA detection pipeline   Oleg Moskvin
• [BioC] logFC and fold change   Marcelo Brandão
• [BioC] Why is *ply-ing over a GRangesList much slower than *ply-ing over an IRangesList?   Martin Morgan
  • [BioC] Why is *ply-ing over a GRangesList much slower than *ply-ing over an IRangesList?   Steve Lianoglou
    • [BioC] Why is *ply-ing over a GRangesList much slower than *ply-ing over an IRangesList?   Martin Morgan
      • [BioC] Why is *ply-ing over a GRangesList much slower than *ply-ing over an IRangesList?   Steve Lianoglou
      • [BioC] Why is *ply-ing over a GRangesList much slower than *ply-ing over an IRangesList?   Vincent Carey
      • [BioC] Why is *ply-ing over a GRangesList much slower than *ply-ing over an IRangesList?   Steve Lianoglou
• [BioC] Discrepancy in differential expression gene list after intraspot correlation   Gordon K Smyth
• [BioC] affyPara   danieladna
  • [BioC] affyPara   Valerie Obenchain
    • [BioC] affyPara   Valerie Obenchain
• [BioC] Bug in set operations over IRanges objects with non-NULL elementMetadata()   Steve Lianoglou
  • [BioC] Bug in set operations over IRanges objects with non-NULL elementMetadata()   Steve Lianoglou
    • [BioC] Bug in set operations over IRanges objects with non-NULL elementMetadata()   Michael Lawrence
      • [BioC] Bug in set operations over IRanges objects with non-NULL elementMetadata()   Michael Lawrence
      • [BioC] Bug in set operations over IRanges objects with non-NULL elementMetadata()   Steve Lianoglou
• [BioC] Three-color microarray analysis   Thomas Sandmann
  • [BioC] Three-color microarray analysis   Wolfgang Huber
    • [BioC] Three-color microarray analysis   Thomas Sandmann
      • [BioC] Three-color microarray analysis   Wolfgang Huber
• [BioC] rtracklayer: import.gff seems to be very slow   Michael Dondrup
  • [BioC] rtracklayer: import.gff seems to be very slow   Michael Lawrence
    • [BioC] rtracklayer: import.gff seems to be very slow   Michael Dondrup
• [BioC] ArrayExpress: missing cdf environment!   Daniel Rico Rodriguez
  • [BioC] ArrayExpress: missing cdf environment!   Wolfgang Huber
    • [BioC] ArrayExpress: missing cdf environment!   Daniel Rico Rodriguez
• [BioC] Problem installing Rsamtools and ShortRead under Fedora 10.   Bernt Guldbrandtsen
  • [BioC] Problem installing Rsamtools and ShortRead under Fedora 10.   Vincent Carey
    • [BioC] Problem installing Rsamtools and ShortRead under Fedora 10.   Martin Morgan
      • [BioC] Problem installing Rsamtools and ShortRead under Fedora 10.   Bernt Guldbrandtsen
• [BioC] Job Posting: Scientific Programmer   Greg Finak
• [BioC] clustering of microarray time-series data   avehna
• [BioC] Human genomic sequences   Sheena Scroggins
  • [BioC] Human genomic sequences   Vincent Carey
• [BioC] help with flank()   joseph
  • [BioC] help with flank()   Michael Lawrence
    • [BioC] help with flank()   joseph
      • [BioC] help with flank()   Martin Morgan
  • [BioC] help with flank()   Vincent Carey
• [BioC] Pairwise Function Output   Lakshmi Kastury
• [BioC] issues while using KEGGSOAP   Swati Sinha
  • [BioC] issues while using KEGGSOAP   Wolfgang Huber
• [BioC] clustering of microarray time-series data   Maciej Jończyk
  • [BioC] clustering of microarray time-series data   avehna
• [BioC] faster way to get differential calls from pileup?   Hollis Wright
  • [BioC] faster way to get differential calls from pileup?   Martin Morgan
• [BioC] Tenure-track position in Applied Statistics, Purdue University   Olga Vitek
• [BioC] faster way to get differential calls from pileup?   Sean Davis
  • [BioC] faster way to get differential calls from pileup?   Vincent Carey
    • [BioC] faster way to get differential calls from pileup?   Vincent Carey
• [BioC] Limma :: decideTest question   Gordon K Smyth
• [BioC] Discrepancy in differential expression gene list after intraspot correlation   Gordon K Smyth
• [BioC] Percentage of Variance to be included at 3D graph of Principal Component Analysis (PCA)- made4 package   John Antony Gaspar
  • [BioC] Percentage of Variance to be included at 3D graph of Principal Component Analysis (PCA)- made4 package   Gerhard Thallinger
    • [BioC] Percentage of Variance to be included at 3D graph of Principal Component Analysis (PCA)- made4 package   Steve Shen
• [BioC] Statistical Bioinformatics Position in Oxford   Stephen Taylor
• [BioC] scaling on normlized data set   Hossain Nawaz
  • [BioC] scaling on normlized data set   Sean Davis
• [BioC] matrix transformation   Bucher Elmar
  • [BioC] matrix transformation   Sean Davis
    • [BioC] matrix transformation   Bucher Elmar
    • [BioC] matrix transformation   Bucher Elmar
  • [BioC] matrix transformation   Vincent Carey
  • [BioC] matrix transformation   Ido M. Tamir
• [BioC] svn version of rtracklayer error   Michael Dondrup
  • [BioC] svn version of rtracklayer error   Martin Morgan
• [BioC] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value   Ying Ye
  • [BioC] [Bioc-sig-seq] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value   Mark Robinson
• [BioC] svn version of rtracklayer error   Michael Dondrup
  • [BioC] svn version of rtracklayer error   Steve Lianoglou
• [BioC] issues with oligo package   Michael MOZAR
• [BioC] multicore Vignette or HowTo??   Edwin Groot
  • [BioC] multicore Vignette or HowTo??   Tim Triche
    • [BioC] multicore Vignette or HowTo??   Tim Triche
    • [BioC] multicore Vignette or HowTo??   Edwin Groot
      • [BioC] multicore Vignette or HowTo??   Joern Toedling
  • [BioC] multicore Vignette or HowTo??   Martin Morgan
    • [BioC] multicore Vignette or HowTo??   Edwin Groot
• [BioC] Agi4x44PreProcess - filter.probes function   Neel Aluru
• [BioC] Bioconductor 2.7 is released   Martin Morgan
• [BioC] Normalization by DEseq   Rui Luo
  • [BioC] Normalization by DEseq   Wolfgang Huber
    • [BioC] Normalization by DEseq   Simon Anders
• [BioC] Problems with oligo package : Nimblegen microarray analysis   Michael MOZAR
  • [BioC] Problems with oligo package : Nimblegen microarray analysis   Benilton Carvalho
• [BioC] (no subject)   Emma Lucas
  • [BioC] (no subject)   Marc Carlson
• [BioC] Compilation problem RBGL_1.26   Bernt Guldbrandtsen
  • [BioC] Compilation problem RBGL_1.26   Vincent Carey
    • [BioC] Compilation problem RBGL_1.26   Bernt Guldbrandtsen
    • [BioC] Compilation problem RBGL_1.26   Bernt Guldbrandtsen
• [BioC] Rgraphviz with rApache problems   Robert M. Flight
  • [BioC] Rgraphviz with rApache problems   Robert M. Flight
• [BioC] R: Doubt about the use of xmapcore Vs exonmap   Manca Marco (PATH)
• [BioC] New gage package: Generally Applicable Gene-set/Pathway Analysis   Luo Weijun
  • [BioC] New gage package: Generally Applicable Gene-set/Pathway Analysis   Edwin Groot
  • [BioC] New gage package: Generally Applicable Gene-set/Pathway Analysis   Luo Weijun
• [BioC] Percentage of Variance to be included at 3D graph, of Principal Component Analysis (PCA)- made4 package   Aedin Culhane
• [BioC] Biobase in R 2.12 referencing libR.dylib from R 2.11, bug?   Josef Spidlen
  • [BioC] Biobase in R 2.12 referencing libR.dylib from R 2.11, bug?   Hervé Pagès
  • [BioC] Biobase in R 2.12 referencing libR.dylib from R 2.11, bug?   John Brehm
• [BioC] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value   Gordon K Smyth
• [BioC] Outlier detection in DEseq   Rui Luo
  • [BioC] Outlier detection in DEseq   Mark Robinson
  • [BioC] Outlier detection in DEseq   Simon Anders
    • [BioC] Outlier detection in DEseq   Wolfgang Huber
• [BioC] Problem importing ArrayExpress data for custom array into BioConductor   Aatish
  • [BioC] Problem importing ArrayExpress data for custom array into BioConductor   Valerie Obenchain
  • [BioC] Problem importing ArrayExpress data for custom array into BioConductor   Wolfgang Huber
• [BioC] Mac binaries for R 2.12 fixed   Hervé Pagès
• [BioC] Problem of read Illumina bead array data in R 2.12.0   jrwang at itri.org.tw
  • [BioC] Problem of read Illumina bead array data in R 2.12.0   Mark Dunning
• [BioC] HTqPCR   Heidi Dvinge
• [BioC] Processing of Illumina Infinium methylation microarray data using lumi - addColorChannelInfo bug?   Paolo Sonego
  • [BioC] Processing of Illumina Infinium methylation microarray data using lumi - addColorChannelInfo bug?   Sean Davis
    • [BioC] Processing of Illumina Infinium methylation microarray data using lumi - addColorChannelInfo bug?   Paolo Sonego
      • [BioC] Processing of Illumina Infinium methylation microarray data using lumi - addColorChannelInfo bug?   Sean Davis
• [BioC] limma for spectral counts   Yolande Tra
  • [BioC] limma for spectral counts   Laurent Gatto
    • [BioC] limma for spectral counts   Naomi Altman
• [BioC] how to import Agilent CGH custom design xml file into limma   Jarek Bryk
  • [BioC] how to import Agilent CGH custom design xml file into limma   Sean Davis
• [BioC] Error while ChIPpeakAnno installation   Prashantha Hebbar
  • [BioC] Error while ChIPpeakAnno installation   Zhu, Lihua (Julie)
• [BioC] *** caught segfault *** ....cause 'invalid permissions' with PUMA pachage   Alberto Goldoni
  • [BioC] Fwd: *** caught segfault *** ....cause 'invalid permissions' with PUMA pachage   Alberto Goldoni
    • [BioC] Fwd: *** caught segfault *** ....cause 'invalid permissions' with PUMA pachage   Richard Pearson
      • [BioC] Fwd: *** caught segfault *** ....cause 'invalid permissions' with PUMA pachage   Alberto Goldoni
      • [BioC] Fwd: *** caught segfault *** ....cause 'invalid permissions' with PUMA pachage   Martin Morgan
• [BioC] arrayQualityMetrics 3.2.0 in Bioc release 2.7 is broken   Wolfgang Huber
  • [BioC] Parsing Illumina Golden Gate idat files   Mike Walter
    • [BioC] Parsing Illumina Golden Gate idat files   Matthew Ritchie
• [BioC] how to import Agilent CGH custom design xml file into limma   Sean Davis
• [BioC] Error loading ArrayExpress in R 2.12 Mac   Michael Dondrup
  • [BioC] Error loading ArrayExpress in R 2.12 Mac   Sean Davis
    • [BioC] Error loading ArrayExpress in R 2.12 Mac   Michael Dondrup
      • [BioC] Error loading ArrayExpress in R 2.12 Mac   Sean Davis
• [BioC] biomaRt query : inconsistent results for different Attribute set   Md.Mamunur Rashid
  • [BioC] biomaRt query : inconsistent results for different Attribute set   Steffen Durinck
• [BioC] ChIPpeakAnno bug?   Zhu, Lihua (Julie)
• [BioC] AnnotatedDataFrame and cbind   Simon Anders
  • [BioC] AnnotatedDataFrame and cbind   Vincent Carey
    • [BioC] AnnotatedDataFrame and cbind   Simon Anders
• [BioC] Downloading metabolic pathway data from KEGG   Tim Clough
• [BioC] Bioconductor   Valerie Obenchain
• [BioC] error in library(affy)   Mayte Suarez-Farinas
  • [BioC] error in library(affy)   Martin Morgan
• [BioC] strange ChIPpeakAnno and rtracklayer interaction.   oleg at stat.berkeley.edu
  • [BioC] FW: strange ChIPpeakAnno and rtracklayer interaction.   Zhu, Lihua (Julie)
  • [BioC] strange ChIPpeakAnno and rtracklayer interaction.   Michael Lawrence
    • [BioC] strange ChIPpeakAnno and rtracklayer interaction.   Vincent Carey
• [BioC] Question about subtracks shown using ‘rtracklayer’ package   LiGang
  • [BioC] Question about subtracks shown using ‘rtracklayer’ package   Michael Lawrence
• [BioC] EdgeR - problems running estimateCRDisp   josquin.tibbits at dpi.vic.gov.au
  • [BioC] EdgeR - problems running estimateCRDisp   Steve Lianoglou
• [BioC] error with MEDIPS.CpGenrich -> resize + segfault in MEDIPS.plotCalibrationPlot   Nora
• [BioC] duplicated on IRanges object   Manuela Hummel
  • [BioC] duplicated on IRanges object   Hervé Pagès
• [BioC] how to map affy SNP ID to pubmed ID   Qian Liu
  • [BioC] how to map affy SNP ID to pubmed ID   Marc Carlson
• [BioC] Annotation package for affy SNP6.0   Qian Liu
• [BioC] getNetAffx function when using oligo package   Jon T
  • [BioC] getNetAffx function when using oligo package   James W. MacDonald
    • [BioC] getNetAffx function when using oligo package   Jon T
      • [BioC] getNetAffx function when using oligo package   Benilton Carvalho
• [BioC] grid.chromosome in quantsmooth, without cytobands?   Paul Shannon
• [BioC] Affy/annaffy question   Achilleas Pitsillides
  • [BioC] Affy/annaffy question   James W. MacDonald
• [BioC] the issue with analysis of multi-channel screen   Ning
  • [BioC] the issue with analysis of multi-channel screen   Wolfgang Huber
• [BioC] Loading Niblegen Files to Oligo   Colleen Doherty
  • [BioC] Loading Niblegen Files to Oligo   Marcelo Brandão
  • [BioC] Loading Niblegen Files to Oligo   Benilton Carvalho
• [BioC] limma for spectral counts   Pavelka, Norman
• [BioC] GRangesForUCSCGenome seems to be missing in rtracklayer 1.10, GenomicRanges 1.2   Paul Shannon
  • [BioC] GRangesForUCSCGenome seems to be missing in rtracklayer 1.10, GenomicRanges 1.2   Vincent Carey
    • [BioC] GRangesForUCSCGenome seems to be missing in rtracklayer 1.10, GenomicRanges 1.2   Paul Shannon
      • [BioC] GRangesForUCSCGenome seems to be missing in rtracklayer 1.10, GenomicRanges 1.2   Martin Morgan
      • [BioC] GRangesForUCSCGenome seems to be missing in rtracklayer 1.10, GenomicRanges 1.2   Paul Shannon
• [BioC] EdgeR - problems running estimateCRDisp   Gordon K Smyth
• [BioC] limma for spectral counts   Pavelka, Norman
• [BioC] Package plgem for analysis of spectral counts, was 'limma for spectral counts'   Pavelka, Norman
  • [BioC] Package plgem for analysis of spectral counts, was 'limma for spectral counts'   Yolande Tra
    • [BioC] Package plgem for analysis of spectral counts, was 'limma for spectral counts'   Pavelka, Norman
      • [BioC] Package plgem for analysis of spectral counts, was 'limma for spectral counts'   Ina Hoeschele
      • [BioC] Fwd: SAFE with small sample sizes   Ina Hoeschele
      • [BioC] Fwd: SAFE with small sample sizes   Ina Hoeschele
• [BioC] A story about IRanges::GappedRanges ... how does it end?   Steve Lianoglou
  • [BioC] A story about IRanges::GappedRanges ... how does it end?   Michael Lawrence
    • [BioC] A story about IRanges::GappedRanges ... how does it end?   Steve Lianoglou
      • [BioC] A story about IRanges::GappedRanges ... how does it end?   Michael Lawrence
• [BioC] Normalization using dCHIP   Lakshmi Kastury
• [BioC] Cyclic Loess   viritha kaza
  • [BioC] Cyclic Loess   viritha kaza
    • [BioC] Cyclic Loess   Martin Morgan
      • [BioC] Cyclic Loess   viritha kaza
      • [BioC] Cyclic Loess   Martin Morgan
• [BioC] Combining two CompressedNormalIRangesList objects doesn't work   Steve Lianoglou
  • [BioC] Combining two CompressedNormalIRangesList objects doesn't work   Steve Lianoglou
    • [BioC] Combining two CompressedNormalIRangesList objects doesn't work   Michael Lawrence
      • [BioC] Combining two CompressedNormalIRangesList objects doesn't work   Steve Lianoglou
• [BioC] avereps problem   Benoit Loup
  • [BioC] avereps problem   Valerie Obenchain
• [BioC] rtracklayer -- how to hide some default tracks? fine-grained control of track view mode (pack, full, dense, squish...)   Paul Shannon
  • [BioC] rtracklayer -- how to hide some default tracks? fine-grained control of track view mode (pack, full, dense, squish...)   Michael Lawrence
    • [BioC] rtracklayer -- how to hide some default tracks? fine-grained control of track view mode (pack, full, dense, squish...)   Paul Shannon
      • [BioC] rtracklayer -- how to hide some default tracks? fine-grained control of track view mode (pack, full, dense, squish...)   Michael Lawrence
• [BioC] remove microarray batch effects using Limma   Xie, Zhi (NIH/NHLBI) [E]
  • [BioC] remove microarray batch effects using Limma   Moshe Olshansky
    • [BioC] remove microarray batch effects using Limma   Mike Walter
      • [BioC] remove microarray batch effects using Limma   Xie, Zhi (NIH/NHLBI) [E]
• [BioC] intermittent oddity in rtracklayer track names   Paul Shannon
  • [BioC] intermittent oddity in rtracklayer track names   Michael Lawrence
    • [BioC] rtracklayer: No export function for 'bedLines' found [was Re: intermittent oddity in rtracklayer track names]   Paul Shannon
      • [BioC] rtracklayer: No export function for 'bedLines' found [was Re: intermittent oddity in rtracklayer track names]   Michael Lawrence
      • [BioC] rtracklayer: No export function for 'bedLines' found [was Re: intermittent oddity in rtracklayer track names]   Paul Shannon
      • [BioC] rtracklayer: No export function for 'bedLines' found [was Re: intermittent oddity in rtracklayer track names]   Michael Lawrence
• [BioC] method and package for imputing spectral counts from masspectrometry   Yolande Tra
  • [BioC] method and package for imputing spectral counts from masspectrometry   Moshe Olshansky
    • [BioC] method and package for imputing spectral counts from masspectrometry   Yolande Tra
• [BioC] Course: Introduction to R / Bioconductor, Seattle Dec 9 / 10   Martin Morgan
• [BioC] ROC query   rasanpreet kaur suri
• [BioC] gene-locations   Noemi Andor
  • [BioC] gene-locations   Vincent Carey
  • [BioC] gene-locations   James W. MacDonald
    • [BioC] gene-locations   Noe Andor
• [BioC] GEOquery: Best way to get a phenodata table from GSE   Daniel Brewer
  • [BioC] GEOquery: Best way to get a phenodata table from GSE   Sean Davis
• [BioC] need help on   Jin, Jp
  • [BioC] R: need help on   Manca Marco (PATH)
    • [BioC] need help on   Jin, Jp
• [BioC] Package xps: problem with RMA normalization for Human Gene ST 1.0   Naïma Oumouhou
• [BioC] Package Icens_1.22.0.tar.gz has been built for Windows   Uwe.Ligges at R-Project.org
• [BioC] Package gpls_1.22.0.tar.gz has been built for Windows   Uwe.Ligges at R-Project.org
• [BioC] Human Affymetrix Exon microarrays   Ernest Turro
• [BioC] HTqPCR : readCtData problem?   Heidi Dvinge
• [BioC] Package xps: problem with RMA normalization for Human Gene ST 1.0   cstrato
  • [BioC] Package xps: problem with RMA normalization for Human Gene ST 1.0   Naïma Oumouhou
• [BioC] HTqPCR problem   Heidi Dvinge
• [BioC] beadarray error messages with BSData function   Huw Jones
  • [BioC] beadarray error messages with BSData function   Mark Cowley
    • [BioC] beadarray error messages with BSData function   Mike Smith
• [BioC] ChIPpeakAnno   Zhu, Lihua (Julie)
• [BioC] HTqPCR : readCtData problem?   Heidi Dvinge
  • [BioC] HTqPCR : readCtData problem?   Stephen Taylor
• [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
  • [BioC] Rsamtools from biocLite using R-devel   Martin Morgan
    • [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
    • [BioC] Rsamtools from biocLite using R-devel   Tengfei Yin
    • [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
      • [BioC] Rsamtools from biocLite using R-devel   Dan Tenenbaum
      • [BioC] Rsamtools from biocLite using R-devel   Kasper Daniel Hansen
      • [BioC] Rsamtools from biocLite using R-devel   dtenenba at fhcrc.org
• [BioC] avereps problem   Gordon K Smyth
  • [BioC] avereps problem   Benoit Loup
• [BioC] Questions about model matrix, logFC and adjusted P.value of t-test   Mingkwan.Nipitwattanaphon at unil.ch
• [BioC] Using rtracklayer for ranges of Genomic DNA   Sheena Scroggins
  • [BioC] Using rtracklayer for ranges of Genomic DNA   Michael Lawrence
• [BioC] arrayQualityMetrics not producing all diagnostic plots   James F. Reid
  • [BioC] arrayQualityMetrics not producing all diagnostic plots   Martin Morgan
    • [BioC] arrayQualityMetrics not producing all diagnostic plots   James F. Reid
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   Martin Morgan
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   James F. Reid
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   Benilton Carvalho
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   James F. Reid
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   Benilton Carvalho
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   Benilton Carvalho
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   Wolfgang Huber
      • [BioC] arrayQualityMetrics not producing all diagnostic plots   James F. Reid
• [BioC] Anyone thinking of expanding rsbml capability of reading SBML versions?   pj dias
  • [BioC] Anyone thinking of expanding rsbml capability of reading SBML versions?   Michael Lawrence
    • [BioC] Anyone thinking of expanding rsbml capability of reading SBML versions?   pj dias
• [BioC] Questions about model matrix, logFC and adjusted P.value of t-test   Maciej Jończyk
• [BioC] Two Bioinformatics Openings @ the Institute of Cancer   Claude Chelala
• [BioC] makeTranscriptDbFromUCSC: ... Error: Request-URI Too Large   joseph
  • [BioC] makeTranscriptDbFromUCSC: ... Error: Request-URI Too Large   Michael Lawrence
    • [BioC] makeTranscriptDbFromUCSC: ... Error: Request-URI Too Large   joseph
  • [BioC] makeTranscriptDbFromUCSC: ... Error: Request-URI Too Large   Michael Lawrence
• [BioC] Dye swaps and M values   Mcmahon, Kwyatt
• [BioC] Questions about model matrix, logFC and adjusted P.value of t-test   Gordon K Smyth
• [BioC] Getting annotation into eset   Timothy Wu
  • [BioC] Getting annotation into eset   Sean Davis
    • [BioC] Getting annotation into eset   Timothy Wu
      • [BioC] Getting annotation into eset   Sean Davis
      • [BioC] Getting annotation into eset   Marc Carlson
      • [BioC] retrieve genes names after KEGG hypergeometric test   Clémentine Dressaire
      • [BioC] retrieve genes names after KEGG hypergeometric test   Mike Walter
      • [BioC] retrieve genes names after KEGG hypergeometric test   Clémentine Dressaire
• [BioC] Limma time series analysis question   January Weiner
• [BioC] limma report logFC confidence interval?   Timothy Wu
  • [BioC] limma report logFC confidence interval?   Sunny Srivastava
• [BioC] adding environment variables   Robert M. Flight
  • [BioC] adding environment variables   Sean Davis
    • [BioC] adding environment variables   Martin Morgan
      • [BioC] adding environment variables   Robert M. Flight
      • [BioC] adding environment variables   Kasper Daniel Hansen
  • [BioC] adding environment variables   Kasper Daniel Hansen
  • [BioC] [R] adding environment variables   Henrique Dallazuanna
• [BioC] Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)   Triantafillos Paparountas
  • [BioC] Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)   Triantafillos Paparountas
    • [BioC] Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)   Chris Fields
    • [BioC] Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)   yemi yomi
• [BioC] rtracklayer 'track' method, a viewLimits parameter?   Paul Shannon
  • [BioC] rtracklayer 'track' method, a viewLimits parameter?   Vincent Carey
  • [BioC] rtracklayer 'track' method, a viewLimits parameter?   Michael Lawrence
    • [BioC] rtracklayer 'track' method, a viewLimits parameter?   Paul Shannon
      • [BioC] rtracklayer 'track' method, a viewLimits parameter?   Michael Lawrence
• [BioC] error msg for probe match (altcdfenvs)   Jack Luo
  • [BioC] error msg for probe match (altcdfenvs)   Laurent Gautier
• [BioC] KEGG pathname to Refseq accession   Viki S
  • [BioC] KEGG pathname to Refseq accession   Vincent Carey
• [BioC] filter on Human Gene U133 Plus 2   Naïma Oumouhou
  • [BioC] filter on Human Gene U133 Plus 2   wxu
  • [BioC] filter on Human Gene U133 Plus 2   cstrato
• [BioC] limma report logFC confidence interval?   Gordon K Smyth
• [BioC] beadarray, bash, hulk, excludeBrihtBeadNeighbors, et al -- how to use practically?   Anand Patel
• [BioC] Limma time series analysis question   Gordon K Smyth
• [BioC] ROC query   rasanpreet kaur suri
  • [BioC] ROC query   Sean Davis

Last message date: Sat Oct 30 14:56:50 CEST 2010
Archived on: Mon Nov 1 17:47:47 CET 2010

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