bioc-sig-sequencing  

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• • Re: [Bioc-sig-seq] Bioconductor approach to Circos Michael Lawrence
  • Re: [Bioc-sig-seq] Bioconductor approach to Circos Ivan Gregoretti
• [Bioc-sig-seq] SRAdb and getFastq kirti prakash
  • Re: [Bioc-sig-seq] SRAdb and getFastq Sean Davis
  • Re: [Bioc-sig-seq] SRAdb and getFastq Martin Morgan
  • Re: [Bioc-sig-seq] SRAdb and getFastq kirti prakash
  • Re: [Bioc-sig-seq] SRAdb and getFastq Steve Lianoglou
  • Re: [Bioc-sig-seq] SRAdb and getFastq Sean Davis
  • Re: [Bioc-sig-seq] SRAdb and getFastq kirti prakash
  • Re: [Bioc-sig-seq] SRAdb and getFastq Jack Zhu
• [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets (Christos Hatzis) Stalteri, Maria A
• [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Christos Hatzis
  • [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Stalteri, Maria A
  • Re: [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Christos Hatzis
  • Re: [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Christos Hatzis
  • Re: [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Mike Smith
  • Re: [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Christos Hatzis
  • Re: [Bioc-sig-seq] 3'-5' position of Affymetrix probe sets Steve Lianoglou
• [Bioc-sig-seq] more operations on BamViews Michael Lawrence
  • Re: [Bioc-sig-seq] more operations on BamViews Martin Morgan
  • Re: [Bioc-sig-seq] more operations on BamViews Vincent Carey
  • Re: [Bioc-sig-seq] more operations on BamViews Michael Lawrence
  • Re: [Bioc-sig-seq] more operations on BamViews Steve Lianoglou
• [Bioc-sig-seq] GenomeDataList to data.frame Coercion Dario Strbenac
  • Re: [Bioc-sig-seq] GenomeDataList to data.frame Coercion Heidi Dvinge
  • Re: [Bioc-sig-seq] GenomeDataList to data.frame Coercion Michael Lawrence
• [Bioc-sig-seq] Feature request: matchPWM() and DNA reverse complement. Ivan Gregoretti
• [Bioc-sig-seq] GRangesList with duplicate names Dario Strbenac
  • Re: [Bioc-sig-seq] GRangesList with duplicate names Pages, Herve
  • Re: [Bioc-sig-seq] GRangesList with duplicate names Ivan Gregoretti
  • Re: [Bioc-sig-seq] GRangesList with duplicate names Steve Lianoglou
  • Re: [Bioc-sig-seq] GRangesList with duplicate names Martin Morgan
  • Re: [Bioc-sig-seq] GRangesList with duplicate names Pages, Herve
• [Bioc-sig-seq] matchPWM() without PWMscoreStartingAt() Ivan Gregoretti
  • Re: [Bioc-sig-seq] matchPWM() without PWMscoreStartingAt() Hervé Pagès
• [Bioc-sig-seq] weird interaction between BSgenome (getSeq) and ChIPpeakAnno Janet Young
  • Re: [Bioc-sig-seq] weird interaction between BSgenome (getSeq) and ChIPpeakAnno Michael Lawrence
  • Re: [Bioc-sig-seq] weird interaction between BSgenome (getSeq) and ChIPpeakAnno Ivan Gregoretti
• [Bioc-sig-seq] reduce error on RangedData with unused space names Janet Young
  • Re: [Bioc-sig-seq] reduce error on RangedData with unused space names Michael Lawrence
  • Re: [Bioc-sig-seq] reduce error on RangedData with unused space names Ivan Gregoretti
  • Re: [Bioc-sig-seq] reduce error on RangedData with unused space names Janet Young
  • Re: [Bioc-sig-seq] reduce error on RangedData with unused space names Ivan Gregoretti
  • Re: [Bioc-sig-seq] reduce error on RangedData with unused space names Michael Lawrence
• [Bioc-sig-seq] findOverlaps with GenomicRanges? Janet Young
  • Re: [Bioc-sig-seq] findOverlaps with GenomicRanges? Martin Morgan
  • Re: [Bioc-sig-seq] findOverlaps with GenomicRanges? Janet Young
  • Re: [Bioc-sig-seq] findOverlaps with GenomicRanges? Martin Morgan
  • Re: [Bioc-sig-seq] findOverlaps with GenomicRanges? Janet Young
• [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Laurent Gautier
  • Re: [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Mads Sønderkær
  • Re: [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Steve Lianoglou
  • [Bioc-sig-seq] trimLRPatterns question Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns question Harris A. Jaffee
  • Re: [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Laurent Gautier
  • Re: [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Simon Anders
  • [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Gordon K Smyth
  • Re: [Bioc-sig-seq] RNASeq, differential expression between group, and large variance within groups Gordon K Smyth
• [Bioc-sig-seq] ShortRead + GappedAlignments -> QualityAlignedXStringSet? Michael Lawrence
  • Re: [Bioc-sig-seq] ShortRead + GappedAlignments -> QualityAlignedXStringSet? Michael Lawrence
  • Re: [Bioc-sig-seq] ShortRead + GappedAlignments -> QualityAlignedXStringSet? Martin Morgan
  • Re: [Bioc-sig-seq] ShortRead + GappedAlignments -> QualityAlignedXStringSet? Michael Lawrence
• [Bioc-sig-seq] trimLRPatterns; matching pattern from pos -1 gives solveUserSEW error Ludo Pagie
  • Re: [Bioc-sig-seq] trimLRPatterns; matching pattern from pos -1 gives solveUserSEW error Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns; matching pattern from pos -1 gives solveUserSEW error Harris A. Jaffee
• [Bioc-sig-seq] R453Plus1Toolbox David A.
  • Re: [Bioc-sig-seq] R453Plus1Toolbox Hans-Ulrich Klein
  • Re: [Bioc-sig-seq] R453Plus1Toolbox David A.
  • Re: [Bioc-sig-seq] R453Plus1Toolbox Hans-Ulrich Klein
• [Bioc-sig-seq] iteration on two Rle Views supat thongjuea
  • Re: [Bioc-sig-seq] iteration on two Rle Views Michael Lawrence
  • Re: [Bioc-sig-seq] iteration on two Rle Views Martin Morgan
• [Bioc-sig-seq] IRanges runmean Arithmetic Precision Dario Strbenac
  • Re: [Bioc-sig-seq] IRanges runmean Arithmetic Precision Martin Morgan
  • Re: [Bioc-sig-seq] IRanges runmean Arithmetic Precision Dario Strbenac
  • Re: [Bioc-sig-seq] IRanges runmean Arithmetic Precision Aboyoun, Patrick E
• [Bioc-sig-seq] viewApplying Efficiently Dario Strbenac
  • Re: [Bioc-sig-seq] viewApplying Efficiently Dario Strbenac
  • Re: [Bioc-sig-seq] viewApplying Efficiently Martin Morgan
  • Re: [Bioc-sig-seq] viewApplying Efficiently Martin Morgan
• [Bioc-sig-seq] Replace Elements of RleList is Slow Dario Strbenac
• [Bioc-sig-seq] processing alignments Chu Zhang
  • Re: [Bioc-sig-seq] processing alignments Steve Lianoglou
  • Re: [Bioc-sig-seq] processing alignments Paul Leo
  • Re: [Bioc-sig-seq] processing alignments Steve Lianoglou
  • Re: [Bioc-sig-seq] processing alignments Paul Leo
  • Re: [Bioc-sig-seq] processing alignments Chu Zhang
• [Bioc-sig-seq] Questions on the edgeR package Jason Lu
  • Re: [Bioc-sig-seq] Questions on the edgeR package Mark Robinson
• [Bioc-sig-seq] goseq for Arabidopsis David A.
  • Re: [Bioc-sig-seq] goseq for Arabidopsis David A.
• [Bioc-sig-seq] short read quality score summary in ShortRead error Kunbin Qu
  • Re: [Bioc-sig-seq] short read quality score summary in ShortRead error Martin Morgan
• [Bioc-sig-seq] finding matches to a motif Ivan Gregoretti
  • Re: [Bioc-sig-seq] finding matches to a motif Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] finding matches to a motif Ivan Gregoretti
  • Re: [Bioc-sig-seq] finding matches to a motif Paul Leo
  • Re: [Bioc-sig-seq] finding matches to a motif Ivan Gregoretti
• [Bioc-sig-seq] Issue RSQLite Luke Zappia
  • Re: [Bioc-sig-seq] Issue RSQLite Steve Lianoglou
  • Re: [Bioc-sig-seq] Issue RSQLite Steve Lianoglou
• [Bioc-sig-seq] liftOver problem (missing ranges method for Chain ?) Boris Lenhard
  • Re: [Bioc-sig-seq] liftOver problem (missing ranges method for Chain ?) Michael Lawrence
• [Bioc-sig-seq] passing sequences on the fly to cosmo() Ivan Gregoretti
  • Re: [Bioc-sig-seq] passing sequences on the fly to cosmo() Harris A. Jaffee
• [Bioc-sig-seq] strand problem in GenomicRanges Joseph Scandura
  • Re: [Bioc-sig-seq] strand problem in GenomicRanges Hervé Pagès
  • Re: [Bioc-sig-seq] strand problem in GenomicRanges Martin Morgan
  • Re: [Bioc-sig-seq] strand problem in GenomicRanges Joseph Scandura
• [Bioc-sig-seq] Bioc course: Advanced R Programming, 17-18 Feb, Seattle Martin Morgan
• [Bioc-sig-seq] Using library(cosmo) for motif detection Ivan Gregoretti
  • [Bioc-sig-seq] Dinucleotide Frequencies analysis Giancarlo Castellano
  • Re: [Bioc-sig-seq] Dinucleotide Frequencies analysis Hans-Rudolf Hotz
• [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Martin Morgan
  • Re: [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Michael Lawrence
  • Re: [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Michael Lawrence
  • Re: [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Michael Lawrence
  • Re: [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Michael Lawrence
  • Re: [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Steve Lianoglou
  • Re: [Bioc-sig-seq] Consolidating RangedData Ivan Gregoretti
  • Re: [Bioc-sig-seq] Consolidating RangedData Michael Lawrence
• [Bioc-sig-seq] error msg from edgeR estimateCRDisp Gordon K Smyth
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Laurent Gautier
  • [Bioc-sig-seq] error msg from edgeR estimateCRDisp kristen.dang
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Wong, Chao-Jen
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Laurent Gautier
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Gordon K Smyth
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Gordon K Smyth
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Laurent Gautier
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Gordon K Smyth
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp kristen.dang
  • Re: [Bioc-sig-seq] error msg from edgeR estimateCRDisp Gordon K Smyth
• [Bioc-sig-seq] 2011 Bogdan Tanasa
• [Bioc-sig-seq] error msg from edgeR estimateCRDisp kristen.dang
• [Bioc-sig-seq] ShortRead/srFilter custom "chromosome filter" R. T. Sweeney
  • Re: [Bioc-sig-seq] ShortRead/srFilter custom "chromosome filter" Sean Davis
• [Bioc-sig-seq] scanBam Error Dario Strbenac
  • Re: [Bioc-sig-seq] scanBam Error Martin Morgan
  • Re: [Bioc-sig-seq] scanBam Error Dario Strbenac
  • Re: [Bioc-sig-seq] scanBam Error Paul Leo
  • Re: [Bioc-sig-seq] scanBam Error Dario Strbenac
  • Re: [Bioc-sig-seq] scanBam Error Martin Morgan
• Re: [Bioc-sig-seq] [BioC] SOLiD color space data rcaloger
  • Re: [Bioc-sig-seq] [BioC] SOLiD color space data Neel Aluru
• [Bioc-sig-seq] SOLiD color space data Neel Aluru
  • Re: [Bioc-sig-seq] SOLiD color space data Martin Morgan
  • Re: [Bioc-sig-seq] SOLiD color space data Neel Aluru
  • Re: [Bioc-sig-seq] SOLiD color space data Martin Morgan
  • Re: [Bioc-sig-seq] SOLiD color space data Neel Aluru
  • Re: [Bioc-sig-seq] SOLiD color space data Steve Lianoglou
  • Re: [Bioc-sig-seq] SOLiD color space data Neel Aluru
  • Re: [Bioc-sig-seq] SOLiD color space data Steve Lianoglou
• [Bioc-sig-seq] countOverlaps question Jason Lu
  • Re: [Bioc-sig-seq] countOverlaps question Michael Lawrence
• Re: [Bioc-sig-seq] short read low complexity filtering Hervé Pagès
  • Re: [Bioc-sig-seq] short read low complexity filtering Hervé Pagès
• [Bioc-sig-seq] rtracklayer liftOver Meier, Samuel
  • Re: [Bioc-sig-seq] rtracklayer liftOver Michael Lawrence
• Re: [Bioc-sig-seq] Simulating data Jim Silverton
  • Re: [Bioc-sig-seq] Simulating data Hervé Pagès
• [Bioc-sig-seq] trimLRPatterns: can someone clarify the effects of the "ranges" argument? Lionel (Lee) Brooks 3rd
  • Re: [Bioc-sig-seq] trimLRPatterns: can someone clarify the effects of the "ranges" argument? Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns: can someone clarify the effects of the "ranges" argument? Martin Morgan
• [Bioc-sig-seq] Normalization of metabolomic data nqueralt
• [Bioc-sig-seq] Random Intervals in GenomicRanges Anna Terry
  • Re: [Bioc-sig-seq] Random Intervals in GenomicRanges Michael Dondrup
  • Re: [Bioc-sig-seq] Random Intervals in GenomicRanges Anna Terry
• [Bioc-sig-seq] GRangesList RAM Usage Dario Strbenac
  • Re: [Bioc-sig-seq] GRangesList RAM Usage Michael Lawrence
• [Bioc-sig-seq] Citing the Bioconductor Ivan Gregoretti
  • Re: [Bioc-sig-seq] Citing the Bioconductor Sunny Srivastava
  • Re: [Bioc-sig-seq] Citing the Bioconductor Ivan Gregoretti
• [Bioc-sig-seq] BSgenome getSeq and unstranded GRanges objects Anna Terry
  • Re: [Bioc-sig-seq] BSgenome getSeq and unstranded GRanges objects Michael Lawrence
  • Re: [Bioc-sig-seq] BSgenome getSeq and unstranded GRanges objects Hervé Pagès
  • Re: [Bioc-sig-seq] BSgenome getSeq and unstranded GRanges objects Anna Terry
• [Bioc-sig-seq] Combine GRanges Stored In A GRangesList Dario Strbenac
  • Re: [Bioc-sig-seq] Combine GRanges Stored In A GRangesList Steve Lianoglou
  • Re: [Bioc-sig-seq] Combine GRanges Stored In A GRangesList Michael Lawrence
• Re: [Bioc-sig-seq] Normalization paired samples Wolfgang Huber
• [Bioc-sig-seq] Course: Intro to R / Bioc, December 9-10 Martin Morgan
• [Bioc-sig-seq] Inverted definitions of "precede" and "follow" (IRanges) ? Ulrike Goebel
  • Re: [Bioc-sig-seq] Inverted definitions of "precede" and "follow" (IRanges) ? Michael Lawrence
• Re: [Bioc-sig-seq] Normalization in RNA-seq Wolfgang Huber
• [Bioc-sig-seq] Refseq vs Ensembl kirti prakash
  • Re: [Bioc-sig-seq] Refseq vs Ensembl Steve Lianoglou
• [Bioc-sig-seq] positionFilter in ShortRead Kunbin Qu
  • Re: [Bioc-sig-seq] positionFilter in ShortRead Martin Morgan
• [Bioc-sig-seq] RNA-Seq - analysis of time series data? Jakob Hedegaard
  • Re: [Bioc-sig-seq] RNA-Seq - analysis of time series data? Mark Robinson
  • Re: [Bioc-sig-seq] RNA-Seq - analysis of time series data? Jakob Hedegaard
  • Re: [Bioc-sig-seq] RNA-Seq - analysis of time series data? Mark Robinson
  • Re: [Bioc-sig-seq] RNA-Seq - analysis of time series data? Mark Robinson
  • Re: [Bioc-sig-seq] RNA-Seq - analysis of time series data? Jakob Hedegaard

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