bioc-sig-sequencing

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2011/07/13 Re: [Bioc-sig-seq] Loading large BAM files Martin Morgan
2011/07/13 Re: [Bioc-sig-seq] Loading large BAM files Martin Morgan
2011/07/13 Re: [Bioc-sig-seq] Loading large BAM files Ivan Gregoretti
2011/07/13 Re: [Bioc-sig-seq] Loading large BAM files Kasper Daniel Hansen
2011/07/13 [Bioc-sig-seq] Loading large BAM files Ivan Gregoretti
2011/07/13 [Bioc-sig-seq] Running R and Bioconductor on a Computer Cluster in the Cloud - cloudnumbers.com Markus Schmidberger
2011/07/09 Re: [Bioc-sig-seq] Welcome to the "Bioc-sig-sequencing" mailing list (Digest mode) 20907099
2011/07/06 [Bioc-sig-seq] R package for DGE analysis between multiple RNA-Seq samples Gordon K Smyth
2011/07/04 Re: [Bioc-sig-seq] R package for DGE analysis between multiple RNA-Seq samples Krys Kelly
2011/07/04 [Bioc-sig-seq] R package for DGE analysis between multiple RNA-Seq samples Bruno Zeitouni
2011/06/30 Re: [Bioc-sig-seq] Adjusted p values in edgeR Davis McCarthy
2011/06/30 Re: [Bioc-sig-seq] Adjusted p values in edgeR Garg, Kavita
2011/06/30 [Bioc-sig-seq] Adjusted p values in edgeR Sara Hanson
2011/06/29 Re: [Bioc-sig-seq] questions about GenomicFeatures Martin Morgan
2011/06/29 Re: [Bioc-sig-seq] counting reads for refseq genes Abhishek Pratap
2011/06/29 [Bioc-sig-seq] counting reads for refseq genes Kunbin Qu
2011/06/29 Re: [Bioc-sig-seq] questions about GenomicFeatures Dario Strbenac
2011/06/29 [Bioc-sig-seq] questions about GenomicFeatures Kunbin Qu
2011/06/27 Re: [Bioc-sig-seq] edgeR common library size question. Davis McCarthy
2011/06/24 Re: [Bioc-sig-seq] edgeR common library size question. yifang tan
2011/06/23 [Bioc-sig-seq] Correction: EdgeR common libary size and normalized counts. yifang tan
2011/06/23 [Bioc-sig-seq] FW: edgeR common library size question. yifang tan
2011/06/23 Re: [Bioc-sig-seq] Fwd: seqselect using GRanges object on multiple chromosomes Janet Young
2011/06/23 Re: [Bioc-sig-seq] Fwd: seqselect using GRanges object on multiple chromosomes Martin Morgan
2011/06/22 Re: [Bioc-sig-seq] Fwd: seqselect using GRanges object on multiple chromosomes Janet Young
2011/06/22 Re: [Bioc-sig-seq] Fwd: seqselect using GRanges object on multiple chromosomes Michael Lawrence
2011/06/22 [Bioc-sig-seq] Fwd: seqselect using GRanges object on multiple chromosomes Janet Young
2011/06/22 [Bioc-sig-seq] seqselect using GRanges object on multiple chromosomes Janet Young
2011/06/21 Re: [Bioc-sig-seq] edgeR common library size question. Davis McCarthy
2011/06/21 [Bioc-sig-seq] edgeR common library size question. yifang tan
2011/06/20 [Bioc-sig-seq] EdgeR yifang tan
2011/06/20 Re: [Bioc-sig-seq] Cannot use Views on a DNAString object on R 2.14.0devel Leonardo Collado Torres
2011/06/20 [Bioc-sig-seq] Cannot use Views on a DNAString object on R 2.14.0devel Leonardo Collado Torres
2011/06/15 Re: [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Michael Lawrence
2011/06/15 Re: [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Hervé Pagès
2011/06/15 Re: [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Michael Lawrence
2011/06/15 Re: [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Hervé Pagès
2011/06/15 Re: [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Janet Young
2011/06/15 Re: [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Michael Lawrence
2011/06/15 [Bioc-sig-seq] as.data.frame on GRanges object with DNAStringSet in values Janet Young
2011/06/15 Re: [Bioc-sig-seq] "identical" on PhredQuality objects - I'm confused Janet Young
2011/06/15 Re: [Bioc-sig-seq] "identical" on PhredQuality objects - I'm confused Hervé Pagès
2011/06/14 Re: [Bioc-sig-seq] Fwd: "identical" on PhredQuality objects - I'm confused Marcus Davy
2011/06/14 [Bioc-sig-seq] Fwd: "identical" on PhredQuality objects - I'm confused Janet Young
2011/06/14 [Bioc-sig-seq] "identical" on PhredQuality objects - I'm confused Janet Young
2011/06/14 Re: [Bioc-sig-seq] roast/romer for count data (edgeR)? Gordon K Smyth
2011/06/12 Re: [Bioc-sig-seq] graph package conflict with rtracklayer Michael Lawrence
2011/06/12 Re: [Bioc-sig-seq] roast/romer for count data (edgeR)? Cei Abreu-Goodger
2011/06/12 [Bioc-sig-seq] roast/romer for count data (edgeR)? Gordon K Smyth
2011/06/11 [Bioc-sig-seq] roast/romer for count data (edgeR)? Cei Abreu-Goodger
2011/06/10 [Bioc-sig-seq] Questions on doing EdgeR Analysis of Timeseries Data Lawson, Mark (mjl3p)
2011/06/10 [Bioc-sig-seq] graph package conflict with rtracklayer Cook, Malcolm
2011/06/09 [Bioc-sig-seq] Questions on doing EdgeR Analysis of Timeseries Data Lawson, Mark (mjl3p)
2011/06/09 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Michael Lawrence
2011/06/09 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Cook, Malcolm
2011/06/07 [Bioc-sig-seq] BSgenome<-seqinfo undefined woes Cook, Malcolm
2011/06/03 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Michael Lawrence
2011/06/03 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Cook, Malcolm
2011/06/02 Re: [Bioc-sig-seq] EdgeR Questions regarding prior.n tagwise dispersion Davis McCarthy
2011/06/02 Re: [Bioc-sig-seq] transforming bam for TEQC Martin Morgan
2011/06/02 Re: [Bioc-sig-seq] transforming bam for TEQC David A.
2011/06/01 Re: [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Ivan Gregoretti
2011/06/01 [Bioc-sig-seq] EdgeR Questions regarding prior.n tagwise dispersion Mads Sønderkær
2011/06/01 Re: [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Martin Morgan
2011/06/01 Re: [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Shah, Nirav
2011/06/01 Re: [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Michael Lawrence
2011/06/01 Re: [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Martin Morgan
2011/06/01 Re: [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Martin Morgan
2011/06/01 [Bioc-sig-seq] Like subseq() but with the ability to accept a vector of starts Ivan Gregoretti
2011/05/31 Re: [Bioc-sig-seq] transforming bam for TEQC Martin Morgan
2011/05/31 Re: [Bioc-sig-seq] re-ordering the sequence from ShortRead Martin Morgan
2011/05/31 [Bioc-sig-seq] re-ordering the sequence from ShortRead Kunbin Qu
2011/05/31 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Michael Lawrence
2011/05/31 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Cook, Malcolm
2011/05/31 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Ivan Gregoretti
2011/05/31 Re: [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Michael Lawrence
2011/05/31 [Bioc-sig-seq] rtracklayer BUG!? import.bed pastes/prefixes 'chr' during import of SOME records Cook, Malcolm
2011/05/31 [Bioc-sig-seq] transforming bam for TEQC David A.
2011/05/26 Re: [Bioc-sig-seq] about dataset in edgeR Davis McCarthy
2011/05/24 [Bioc-sig-seq] about dataset in edgeR gregory voisin
2011/05/22 Re: [Bioc-sig-seq] Creating A TranscriptDb Dario Strbenac
2011/05/22 [Bioc-sig-seq] Creating A TranscriptDb Dario Strbenac
2011/05/17 Re: [Bioc-sig-seq] shortRead qa() minor bug Marcus Davy
2011/05/17 Re: [Bioc-sig-seq] shortRead qa() minor bug Martin Morgan
2011/05/17 Re: [Bioc-sig-seq] shortRead qa() minor bug Marcus Davy
2011/05/17 [Bioc-sig-seq] shortRead qa() minor bug Marcus Davy
2011/05/17 Re: [Bioc-sig-seq] weighted coverage on GRanges object Hervé Pagès
2011/05/17 Re: [Bioc-sig-seq] ShortRead, feature request (if not a bug report) Ivan Gregoretti
2011/05/17 Re: [Bioc-sig-seq] ShortRead, feature request (if not a bug report) Martin Morgan
2011/05/17 [Bioc-sig-seq] ShortRead, feature request (if not a bug report) Ivan Gregoretti
2011/05/17 Re: [Bioc-sig-seq] weighted coverage on GRanges object Janet Young
2011/05/16 Re: [Bioc-sig-seq] Package ShortRead: occurenceFilter and chromosomeFilter("NM") Ivan Gregoretti
2011/05/14 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Hervé Pagès
2011/05/13 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Janet Young
2011/05/13 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Janet Young
2011/05/13 Re: [Bioc-sig-seq] Package ShortRead: occurenceFilter and chromosomeFilter("NM") Valerie Obenchain
2011/05/13 Re: [Bioc-sig-seq] weighted coverage on GRanges object Hervé Pagès
2011/05/13 [Bioc-sig-seq] Package ShortRead: occurenceFilter and chromosomeFilter("NM") Ivan Gregoretti
2011/05/13 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Hervé Pagès
2011/05/11 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Hervé Pagès
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Ivan Gregoretti
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Martin Morgan
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Ivan Gregoretti
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Martin Morgan
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Ivan Gregoretti
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Martin Morgan
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Ivan Gregoretti
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Sean Davis
2011/05/11 Re: [Bioc-sig-seq] Package affy and its depencies Ivan Gregoretti
2011/05/10 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Janet Young
2011/05/10 [Bioc-sig-seq] interaction factor in edgeR Gordon K Smyth
2011/05/10 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Janet Young
2011/05/10 Re: [Bioc-sig-seq] Package affy and its depencies James W. MacDonald
2011/05/10 Re: [Bioc-sig-seq] understanding memory size of AlignedRead objects Martin Morgan
2011/05/10 [Bioc-sig-seq] understanding memory size of AlignedRead objects Janet Young
2011/05/10 [Bioc-sig-seq] Package affy and its depencies Ivan Gregoretti
2011/05/10 [Bioc-sig-seq] interaction factor in edgeR Biase, Fernando
2011/05/06 [Bioc-sig-seq] weighted coverage on GRanges object Janet Young
2011/04/29 [Bioc-sig-seq] BioC 2011 -- Where Software and Biology Connect, Seattle, WA July 28-29 Martin Morgan
2011/04/29 [Bioc-sig-seq] R/Bioc workshops at UC Riverside Thomas Girke
2011/04/19 Re: [Bioc-sig-seq] srapply / as.list / multicore weird interaction Martin Morgan
2011/04/19 [Bioc-sig-seq] srapply / as.list / multicore weird interaction Janet Young
2011/04/18 [Bioc-sig-seq] Spike-in control dataset from RNA-Seq? Jason Lu
2011/04/15 Re: [Bioc-sig-seq] Bioconductor 2.8 is released Ivan Gregoretti
2011/04/15 Re: [Bioc-sig-seq] Bioconductor 2.8 is released João Moura
2011/04/15 Re: [Bioc-sig-seq] Bioconductor 2.8 is released Ivan Gregoretti
2011/04/15 Re: [Bioc-sig-seq] Bioconductor 2.8 is released Dan Tenenbaum
2011/04/15 Re: [Bioc-sig-seq] Bioconductor 2.8 is released Ivan Gregoretti
2011/04/14 [Bioc-sig-seq] Bioconductor 2.8 is released Dan Tenenbaum
2011/04/14 Re: [Bioc-sig-seq] Extracting data from SimpleRleViewsList Lax
2011/04/14 Re: [Bioc-sig-seq] Extracting data from SimpleRleViewsList Michael Lawrence
2011/04/14 [Bioc-sig-seq] Extracting data from SimpleRleViewsList Lakshmanan Iyer
2011/04/12 [Bioc-sig-seq] Howto "inject" indels? Nicolas Delhomme
2011/04/11 Re: [Bioc-sig-seq] countOverlaps throws error on GRangesList and GappedAlignments Hervé Pagès
2011/04/11 Re: [Bioc-sig-seq] countOverlaps throws error on GRangesList and GappedAlignments Michael Lawrence
2011/04/11 Re: [Bioc-sig-seq] countOverlaps throws error on GRangesList and GappedAlignments Valerie Obenchain
2011/04/11 Re: [Bioc-sig-seq] countOverlaps throws error on GRangesList and GappedAlignments Valerie Obenchain
2011/04/10 [Bioc-sig-seq] countOverlaps throws error on GRangesList and GappedAlignments Lakshmanan Iyer
2011/03/31 Re: [Bioc-sig-seq] [BioC] Re(surrecting): Rsamtools countBam labeling Martin Morgan
2011/03/31 Re: [Bioc-sig-seq] A question of edgeR DGEList() - no norm.factors generated Davis McCarthy
2011/03/31 Re: [Bioc-sig-seq] [BioC] Re(surrecting): Rsamtools countBam labeling Cook, Malcolm
2011/03/31 Re: [Bioc-sig-seq] [BioC] Re(surrecting): Rsamtools countBam labeling Cook, Malcolm
2011/03/31 [Bioc-sig-seq] A question of edgeR DGEList() - no norm.factors generated Kyunghee Park
2011/03/31 Re: [Bioc-sig-seq] [BioC] Re(surrecting): Rsamtools countBam labeling Martin Morgan
2011/03/31 [Bioc-sig-seq] Re(surrecting): Rsamtools countBam labeling Cook, Malcolm
2011/03/29 Re: [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Nicolas Delhomme
2011/03/29 Re: [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Michael Lawrence
2011/03/29 Re: [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Nicolas Delhomme
2011/03/29 Re: [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Michael Lawrence
2011/03/29 Re: [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Nicolas Delhomme
2011/03/28 Re: [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Martin Morgan
2011/03/28 Re: [Bioc-sig-seq] rna-seq: gene correlation João Moura
2011/03/28 Re: [Bioc-sig-seq] rna-seq: gene correlation Simon Anders
2011/03/28 [Bioc-sig-seq] generic for strand in genomeIntervals and GenomicRanges Julien Gagneur
2011/03/27 Re: [Bioc-sig-seq] filtering by adapters in QA report Harris A. Jaffee
2011/03/26 Re: [Bioc-sig-seq] filtering by adapters in QA report Wolfgang Huber
2011/03/25 Re: [Bioc-sig-seq] filtering by adapters in QA report Marcus Davy
2011/03/25 Re: [Bioc-sig-seq] filtering by adapters in QA report Robert Gentleman
2011/03/25 Re: [Bioc-sig-seq] filtering by adapters in QA report Martin Morgan
2011/03/24 [Bioc-sig-seq] rna-seq: gene correlation João Moura
2011/03/24 Re: [Bioc-sig-seq] readFastq() error joseph
2011/03/24 [Bioc-sig-seq] filtering by adapters in QA report Michael Lawrence
2011/03/24 Re: [Bioc-sig-seq] readFastq() error Martin Morgan
2011/03/24 Re: [Bioc-sig-seq] readFastq() error joseph
2011/03/24 Re: [Bioc-sig-seq] readFastq() error Martin Morgan
2011/03/24 Re: [Bioc-sig-seq] readFastq() error joseph
2011/03/23 Re: [Bioc-sig-seq] mapply with GRangesList Dario Strbenac
2011/03/23 Re: [Bioc-sig-seq] mapply with GRangesList Michael Lawrence
2011/03/23 Re: [Bioc-sig-seq] readFastq() error Martin Morgan
2011/03/23 Re: [Bioc-sig-seq] mapply with GRangesList Martin Morgan
2011/03/23 Re: [Bioc-sig-seq] readFastq() error joseph
2011/03/23 [Bioc-sig-seq] mapply with GRangesList Dario Strbenac
2011/03/23 Re: [Bioc-sig-seq] readFastq() error Martin Morgan
2011/03/23 Re: [Bioc-sig-seq] readFastq() error Martin Morgan
2011/03/23 [Bioc-sig-seq] readFastq() error joseph
2011/03/17 Re: [Bioc-sig-seq] ChIPpeakAnno Causes GenomicRanges Package Error Dario Strbenac
2011/03/17 Re: [Bioc-sig-seq] ChIPpeakAnno Causes GenomicRanges Package Error Martin Morgan
2011/03/17 [Bioc-sig-seq] ChIPpeakAnno Causes GenomicRanges Package Error Dario Strbenac
2011/03/17 Re: [Bioc-sig-seq] ChIPpeakAnno Error when Strand is * and geneEnd for FeatureLocForDistance Zhu, Lihua (Julie)
2011/03/16 Re: [Bioc-sig-seq] extract 3UTR using GenomicFeatures package Pages, Herve
2011/03/16 [Bioc-sig-seq] ChIPpeakAnno Error when Strand is * Dario Strbenac
2011/03/16 [Bioc-sig-seq] extract 3UTR using GenomicFeatures package Jason Lu
2011/03/14 [Bioc-sig-seq] Open Postdoc Positions Thomas Girke
2011/03/13 Re: [Bioc-sig-seq] countOverlaps With GRangesList Michael Lawrence
2011/03/13 [Bioc-sig-seq] countOverlaps With GRangesList Dario Strbenac
2011/03/11 [Bioc-sig-seq] BioC 2.8 New Package Submission Deadline - 3/23/2011 Wong, Chao-Jen
2011/03/10 Re: [Bioc-sig-seq] Bioconductor approach to Circos Ivan Gregoretti
2011/03/10 Re: [Bioc-sig-seq] BED file parser Michael Lawrence
2011/03/10 Re: [Bioc-sig-seq] BED file parser Ivan Gregoretti
2011/03/10 Re: [Bioc-sig-seq] BED file parser Jonathan Cairns
2011/03/09 Re: [Bioc-sig-seq] BED file parser Martin Morgan
2011/03/09 Re: [Bioc-sig-seq] BED file parser Martin Morgan
2011/03/09 Re: [Bioc-sig-seq] BED file parser Ivan Gregoretti
2011/03/09 Re: [Bioc-sig-seq] BED file parser Michael Lawrence
2011/03/09 Re: [Bioc-sig-seq] BED file parser Ivan Gregoretti
2011/03/09 Re: [Bioc-sig-seq] BED file parser Michael Lawrence
2011/03/09 Re: [Bioc-sig-seq] edgeR package: install on Linux Steve Lianoglou
2011/03/09 [Bioc-sig-seq] edgeR package: install on Linux Jean-Paul Bouchet
2011/03/09 Re: [Bioc-sig-seq] BED file parser Ivan Gregoretti
2011/03/08 Re: [Bioc-sig-seq] BED file parser Vincent Carey