bioc-sig-sequencing  

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• • Re: [Bioc-sig-seq] Fast inject into XStringSet objects Thomas Girke
• [Bioc-sig-seq] Problem loading MAQ map file in ShortRead Gordon Robertson
  • Re: [Bioc-sig-seq] Problem loading MAQ map file in ShortRead Martin Morgan
  • Re: [Bioc-sig-seq] Problem loading MAQ map file in ShortRead Gordon Robertson
  • Re: [Bioc-sig-seq] Problem loading MAQ map file in ShortRead Martin Morgan
  • Re: [Bioc-sig-seq] Problem loading MAQ map file in ShortRead Gordon Robertson
• [Bioc-sig-seq] call genomic structural variation João Fadista
  • Re: [Bioc-sig-seq] call genomic structural variation Cei Abreu-Goodger
  • Re: [Bioc-sig-seq] call genomic structural variation João Fadista
• [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. ig2ar-saf2
  • Re: [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. Deepayan Sarkar
  • Re: [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. ig2ar-saf2
  • Re: [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. ig2ar-saf2
  • Re: [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. Sean Davis
  • Re: [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. Deepayan Sarkar
  • Re: [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. Laurent Gautier
  • [Bioc-sig-seq] Error while trying to xyplot. Perhaps a lattice problem. ig2ar-saf2
• [Bioc-sig-seq] how to identify differentially expressed genes? joseph
  • Re: [Bioc-sig-seq] how to identify differentially expressed genes? Kasper Daniel Hansen
• [Bioc-sig-seq] About trimming adaptor of Solexa short reads Xiang Xu
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads James W. MacDonald
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads Dan Bolser
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads James W. MacDonald
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads Thomas Girke
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads Dan Bolser
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads Martin Morgan
  • Re: [Bioc-sig-seq] About trimming adaptor of Solexa short reads Dan Bolser
• [Bioc-sig-seq] gapped alignment Lana Schaffer
  • Re: [Bioc-sig-seq] gapped alignment Thomas Girke
  • Re: [Bioc-sig-seq] gapped alignment Robert Gentleman
  • Re: [Bioc-sig-seq] gapped alignment Thomas Girke
  • Re: [Bioc-sig-seq] gapped alignment Patrick Aboyoun
  • Re: [Bioc-sig-seq] gapped alignment Thomas Girke
  • Re: [Bioc-sig-seq] gapped alignment Kasper Daniel Hansen
• [Bioc-sig-seq] Input from multiple Solexa runs ig2ar-saf2
  • Re: [Bioc-sig-seq] Input from multiple Solexa runs Deepayan Sarkar
  • Re: [Bioc-sig-seq] Input from multiple Solexa runs ig2ar-saf2
  • Re: [Bioc-sig-seq] Input from multiple Solexa runs Deepayan Sarkar
  • Re: [Bioc-sig-seq] Input from multiple Solexa runs ig2ar-saf2
  • Re: [Bioc-sig-seq] Input from multiple Solexa runs Deepayan Sarkar
  • Re: [Bioc-sig-seq] Input from multiple Solexa runs ig2ar-saf2
• [Bioc-sig-seq] Standard 454 quality checks? Dan Bolser
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Martin Morgan
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Dan Bolser
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Michael Lawrence
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Dan Bolser
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Michael Lawrence
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Martin Morgan
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Patrick Aboyoun
  • Re: [Bioc-sig-seq] Standard 454 quality checks? Thomas Girke
• [Bioc-sig-seq] chipseq package Wu, Xiwei
  • Re: [Bioc-sig-seq] chipseq package Nicolas Delhomme
  • Re: [Bioc-sig-seq] chipseq package Vincent Carey
  • Re: [Bioc-sig-seq] chipseq package Wu, Xiwei
  • Re: [Bioc-sig-seq] Chipseq package Nicolas Delhomme
• [Bioc-sig-seq] Rmpi ig2ar-saf2
  • Re: [Bioc-sig-seq] Rmpi Sean Davis
  • Re: [Bioc-sig-seq] Rmpi ig2ar-saf2
  • Re: [Bioc-sig-seq] Rmpi Steve Lianoglou
• [Bioc-sig-seq] A myriad of classes ig2ar-saf2
  • Re: [Bioc-sig-seq] A myriad of classes Michael Lawrence
  • Re: [Bioc-sig-seq] A myriad of classes ig2ar-saf2
  • Re: [Bioc-sig-seq] A myriad of classes Deepayan Sarkar
  • Re: [Bioc-sig-seq] A myriad of classes ig2ar-saf2
  • Re: [Bioc-sig-seq] A myriad of classes Deepayan Sarkar
  • Re: [Bioc-sig-seq] A myriad of classes Martin Morgan
  • Re: [Bioc-sig-seq] A myriad of classes ig2ar-saf2
• [Bioc-sig-seq] filtering using solexa quality scores Vincent Carey
  • Re: [Bioc-sig-seq] filtering using solexa quality scores Martin Morgan
  • Re: [Bioc-sig-seq] filtering using solexa quality scores Cei Abreu-Goodger
  • Re: [Bioc-sig-seq] filtering using solexa quality scores Vincent Carey
  • Re: [Bioc-sig-seq] filtering using solexa quality scores Cei Abreu-Goodger
• [Bioc-sig-seq] retrieving from SRA using fasp: Vincent Carey
  • Re: [Bioc-sig-seq] retrieving from SRA using fasp: Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] retrieving from SRA using fasp: ig2ar-saf2
• [Bioc-sig-seq] Linear interpolation for BED formatted data ig2ar-saf2
  • Re: [Bioc-sig-seq] Linear interpolation for BED formatted data Wolfgang Huber
• [Bioc-sig-seq] alignQuality gives NA joseph
  • Re: [Bioc-sig-seq] alignQuality gives NA Martin Morgan
• [Bioc-sig-seq] analyze Bowtie output with qa() joseph
  • Re: [Bioc-sig-seq] analyze Bowtie output with qa() Martin Morgan
• [Bioc-sig-seq] filtering adaptors again Lana Schaffer
  • Re: [Bioc-sig-seq] filtering adaptors again Cei Abreu-Goodger
  • Re: [Bioc-sig-seq] filtering adaptors again Martin Morgan
  • Re: [Bioc-sig-seq] filtering adaptors again Patrick Aboyoun
  • Re: [Bioc-sig-seq] filtering adaptors again Lana Schaffer
• [Bioc-sig-seq] pileup problem with converted Bowtie output joseph franklin
  • Re: [Bioc-sig-seq] pileup problem with converted Bowtie output Martin Morgan
  • Re: [Bioc-sig-seq] pileup problem with converted Bowtie output joseph franklin
• [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for a ChIP-seq analysis. [email protected]
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for a ChIP-seq analysis. Robert Gentleman
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for aChIP-seq analysis. João Fadista
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for aChIP-seq analysis. ig2ar-saf2
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for aChIP-seq analysis. Martin Morgan
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for aChIP-seq analysis. Deepayan Sarkar
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for aChIP-seq analysis. ig2ar-saf2
  • Re: [Bioc-sig-seq] Reducing Solexa's export.txt in preparation for aChIP-seq analysis. Deepayan Sarkar
• [Bioc-sig-seq] Coercing to "GenomicData" ig2ar-saf2
  • Re: [Bioc-sig-seq] Coercing to "GenomicData" Michael Lawrence
• [Bioc-sig-seq] readAligned error: negative length vectors are not allowed joseph
  • Re: [Bioc-sig-seq] readAligned error: negative length vectors are not allowed Martin Morgan
  • Re: [Bioc-sig-seq] readAligned error: negative length vectors are not allowed joseph
  • Re: [Bioc-sig-seq] readAligned error: negative length vectors are not allowed Martin Morgan
• [Bioc-sig-seq] report error joseph
  • Re: [Bioc-sig-seq] report error Wolfgang Huber
  • Re: [Bioc-sig-seq] report error Martin Morgan
  • Re: [Bioc-sig-seq] report error joseph
• [Bioc-sig-seq] a general question Bogdan Tanasa
  • Re: [Bioc-sig-seq] a general question Martin Morgan
• [Bioc-sig-seq] Generating heatmaps in R from RNAseq using solexa Carl Yeoman
  • Re: [Bioc-sig-seq] Generating heatmaps in R from RNAseq using solexa Sean Davis
• [Bioc-sig-seq] matchPDict error burak kutlu
• [Bioc-sig-seq] Bioinformatics virtual issue on NGS Wolfgang Huber
  • Re: [Bioc-sig-seq] Bioinformatics virtual issue on NGS Dan Bolser
  • Re: [Bioc-sig-seq] Bioinformatics virtual issue on NGS Wolfgang Huber
• [Bioc-sig-seq] Low-complexity read filtering/trimming Cei Abreu-Goodger
  • Re: [Bioc-sig-seq] Low-complexity read filtering/trimming Hervé Pagès
  • Re: [Bioc-sig-seq] Low-complexity read filtering/trimming Hervé Pagès
  • Re: [Bioc-sig-seq] Low-complexity read filtering/trimming [PolyA removal] Middha, Sumit
  • Re: [Bioc-sig-seq] Low-complexity read filtering/trimming [PolyA removal] Patrick Aboyoun
• [Bioc-sig-seq] comparing Affy SNP arrays with deep sequencing ? Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] comparing Affy SNP arrays with deep sequencing ? Dan Bolser
  • Re: [Bioc-sig-seq] comparing Affy SNP arrays with deep sequencing ? Dan Bolser
  • Re: [Bioc-sig-seq] comparing Affy SNP arrays with deep sequencing ? Sean Davis
• [Bioc-sig-seq] library chipseq Kauer Max
  • Re: [Bioc-sig-seq] library chipseq Laurent Gatto
  • Re: [Bioc-sig-seq] library chipseq Patrick Aboyoun
  • Re: [Bioc-sig-seq] library chipseq Kauer Max
  • Re: [Bioc-sig-seq] library chipseq Patrick Aboyoun
• [Bioc-sig-seq] adaptors Bogdan Tanasa
  • Re: [Bioc-sig-seq] adaptors Sean Davis
• [Bioc-sig-seq] SOLID data nicolas servant
  • Re: [Bioc-sig-seq] SOLID data Martin Morgan
  • Re: [Bioc-sig-seq] SOLID data Daniel Klevebring
  • Re: [Bioc-sig-seq] SOLID data nicolas servant
  • Re: [Bioc-sig-seq] SOLID data rcaloger
• Re: [Bioc-sig-seq] Filtering Bowtie alignments (has no subject before) delhomme
  • Re: [Bioc-sig-seq] Filtering Bowtie alignments (has nosubject before) João Fadista
  • Re: [Bioc-sig-seq] Filtering Bowtie alignments (has nosubject before) Patrick Aboyoun
• [Bioc-sig-seq] (no subject) delhomme
  • Re: [Bioc-sig-seq] (no subject) Martin Morgan
  • [Bioc-sig-seq] (no subject) Carl Yeoman
  • [Bioc-sig-seq] (no subject) Sini Junttila
• [Bioc-sig-seq] EMBL Heidelberg seeks a Bioinformatician / Data Analyst delhomme
• [Bioc-sig-seq] general quesion regarding chipseq Tobias Straub
  • Re: [Bioc-sig-seq] general quesion regarding chipseq Steve Lianoglou
• [Bioc-sig-seq] Solexa fastq files and BLAT Daniel Brewer
• [Bioc-sig-seq] Solexa quality to numeric conversion James W. MacDonald
  • Re: [Bioc-sig-seq] Solexa quality to numeric conversion Martin Morgan
• Re: [Bioc-sig-seq] Bioc-sig-sequencing Digest, Vol 11, Issue 4 John Burke
• Re: [Bioc-sig-seq] power calculations Bogdan Tanasa
• [Bioc-sig-seq] IRanges - coverage Hans-Ulrich Klein
  • Re: [Bioc-sig-seq] IRanges - coverage Patrick Aboyoun
• [Bioc-sig-seq] Course material for "Using Bioconductor for ChIP-seq experiments" Patrick Aboyoun
  • [Bioc-sig-seq] Alignments timings Werner Van Belle
  • Re: [Bioc-sig-seq] [BioC] Alignments timings Hervé Pagès
  • Re: [Bioc-sig-seq] [BioC] Alignments timings James W. MacDonald
  • Re: [Bioc-sig-seq] [BioC] Alignments timings Sean Davis
• Re: [Bioc-sig-seq] ShortRead and calibrated qualities Martin Morgan
  • Re: [Bioc-sig-seq] ShortRead and calibrated qualities Victor Ruotti
• [Bioc-sig-seq] ChIPseq, repeated regions and multiple matched tags Romain FENOUIL
  • Re: [Bioc-sig-seq] ChIPseq, repeated regions and multiple matched tags Sean Davis
  • Re: [Bioc-sig-seq] ChIPseq, repeated regions and multiple matched tags Simon Anders
  • Re: [Bioc-sig-seq] ChIPseq, repeated regions and multiple matched tags Sean Davis
• [Bioc-sig-seq] BMC Bioinf paper: probabilistic base calling of Solexa sequencing data, Rougemont et al. Wolfgang Huber
• [Bioc-sig-seq] SNP counting (Biostrings ?) question Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] SNP counting (Biostrings ?) question Herve Pages
  • Re: [Bioc-sig-seq] SNP counting (Biostrings ?) question Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] SNP counting (Biostrings ?) question Patrick Aboyoun
  • Re: [Bioc-sig-seq] SNP counting (Biostrings ?) question Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] SNP counting (Biostrings ?) question Patrick Aboyoun
• [Bioc-sig-seq] A modified readFASTA for reading 'quality fasta' files. Dan Bolser
• [Bioc-sig-seq] Shortreads Terry Therneau
  • Re: [Bioc-sig-seq] Shortreads Patrick Aboyoun
  • Re: [Bioc-sig-seq] Shortreads Michael Lawrence
  • Re: [Bioc-sig-seq] Shortreads Martin Morgan
  • Re: [Bioc-sig-seq] Shortreads Michael Lawrence
  • Re: [Bioc-sig-seq] Shortreads Sean Davis
  • Re: [Bioc-sig-seq] Shortreads Terry Therneau
  • Re: [Bioc-sig-seq] Shortreads Martin Morgan
• [Bioc-sig-seq] Finding Restriction sites and gaps Charles C. Berry
• [Bioc-sig-seq] new MINSEQE page Wolfgang Huber
• [Bioc-sig-seq] MINSEQE Wolfgang Huber
  • Re: [Bioc-sig-seq] MINSEQE Martin Morgan
  • Re: [Bioc-sig-seq] MINSEQE Cook, Malcolm
• [Bioc-sig-seq] 454 data normalization Ziping Zhang
  • Re: [Bioc-sig-seq] 454 data normalization Sean Davis
• [Bioc-sig-seq] Adapter removal Krys Kelly
  • Re: [Bioc-sig-seq] Adapter removal Sean Davis
  • Re: [Bioc-sig-seq] Adapter removal Harris A. Jaffee
  • Re: [Bioc-sig-seq] Adapter removal Krys Kelly
  • Re: [Bioc-sig-seq] Adapter removal Cei Abreu-Goodger
  • Re: [Bioc-sig-seq] Adapter removal Martin Morgan
  • Re: [Bioc-sig-seq] Adapter removal Patrick Aboyoun
  • Re: [Bioc-sig-seq] Adapter removal Herve Pages
  • [Bioc-sig-seq] adapter removal David A.G
  • Re: [Bioc-sig-seq] adapter removal Dan Bolser
  • Re: [Bioc-sig-seq] adapter removal David A.G
  • Re: [Bioc-sig-seq] adapter removal Patrick Aboyoun
  • Re: [Bioc-sig-seq] adapter removal Martin Morgan

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