bioc-sig-sequencing  

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• • Re: [Bioc-sig-seq] fastq2fasta Martin Morgan
• [Bioc-sig-seq] Calculating/plotting Avg Base Quality Pratap, Abhishek
  • Re: [Bioc-sig-seq] Calculating/plotting Avg Base Quality Johannes Waage
  • Re: [Bioc-sig-seq] Calculating/plotting Avg Base Quality Pratap, Abhishek
  • Re: [Bioc-sig-seq] Calculating/plotting Avg Base Quality Martin Morgan
  • Re: [Bioc-sig-seq] Calculating/plotting Avg Base Quality Pratap, Abhishek
  • Re: [Bioc-sig-seq] Calculating/plotting Avg Base Quality Martin Morgan
  • Re: [Bioc-sig-seq] Calculating/plotting Avg Base Quality Johannes Waage
  • [Bioc-sig-seq] Problem loading PICS in Windows Muino, Jose
  • Re: [Bioc-sig-seq] Problem loading PICS in Windows Gottardo Raphaël
  • Re: [Bioc-sig-seq] Problem loading PICS in Windows Muino, Jose
  • Re: [Bioc-sig-seq] Problem loading PICS in Windows Gottardo Raphaël
• [Bioc-sig-seq] readAligned and SAM format Hattem, Gaye
  • Re: [Bioc-sig-seq] readAligned and SAM format Martin Morgan
  • Re: [Bioc-sig-seq] readAligned and SAM format Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] readAligned and SAM format Martin Morgan
• [Bioc-sig-seq] Short read overlap function Johannes Waage
  • Re: [Bioc-sig-seq] Short read overlap function Michael Lawrence
  • Re: [Bioc-sig-seq] Short read overlap function Michael Lawrence
  • Re: [Bioc-sig-seq] Short read overlap function Joern Toedling
  • Re: [Bioc-sig-seq] Short read overlap function Michael Lawrence
  • Re: [Bioc-sig-seq] Short read overlap function Johannes Waage
• [Bioc-sig-seq] rtracklayer and wig manipulation Ivan Gregoretti
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Michael Lawrence
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Simon Anders
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Michael Lawrence
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Michael Lawrence
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Simon Anders
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Michael Lawrence
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Patrick Aboyoun
  • Re: [Bioc-sig-seq] rtracklayer and wig manipulation Ivan Gregoretti
• [Bioc-sig-seq] Biostrings: problem to access indel-details form pairwiseAlignment() Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] Biostrings: problem to access indel-details form pairwiseAlignment() Patrick Aboyoun
  • Re: [Bioc-sig-seq] Biostrings: problem to access indel-details form pairwiseAlignment() Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] Biostrings: problem to access indel-details form pairwiseAlignment() Patrick Aboyoun
  • Re: [Bioc-sig-seq] Biostrings: problem to access indel-details form pairwiseAlignment() Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] Biostrings: problem to access indel-details form pairwiseAlignment() Patrick Aboyoun
• [Bioc-sig-seq] R package for building suffix trees Purnachander
  • Re: [Bioc-sig-seq] R package for building suffix trees Michael Lawrence
• [Bioc-sig-seq] reading 454 data with ShortRead Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] reading 454 data with ShortRead Michael Mueller
  • Re: [Bioc-sig-seq] reading 454 data with ShortRead Wolfgang Raffelsberger
  • Re: [Bioc-sig-seq] reading 454 data with ShortRead Pratap, Abhishek
  • Re: [Bioc-sig-seq] reading 454 data with ShortRead Dan Bolser
  • Re: [Bioc-sig-seq] reading 454 data with ShortRead Dan Bolser
  • Re: [Bioc-sig-seq] reading 454 data with ShortRead Martin Morgan
• [Bioc-sig-seq] Pruning rows from a RangedData object Simon Anders
  • Re: [Bioc-sig-seq] Pruning rows from a RangedData object Patrick Aboyoun
  • Re: [Bioc-sig-seq] Pruning rows from a RangedData object Patrick Aboyoun
• [Bioc-sig-seq] Rolexa, a new BioC package for calling bases off a Solexa sequencer Patrick Aboyoun
• [Bioc-sig-seq] packages for sequence assembly? Purnachander
  • Re: [Bioc-sig-seq] packages for sequence assembly? Sean Davis
  • Re: [Bioc-sig-seq] packages for sequence assembly? Dan Bolser
  • Re: [Bioc-sig-seq] packages for sequence assembly? Dan Bolser
• Re: [Bioc-sig-seq] [BioC] Error in assign while calling the vmatchPattern function Hervé Pagès
• [Bioc-sig-seq] aggregating a RangedData over an IRanges object Simon Anders
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Michael Lawrence
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Simon Anders
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Patrick Aboyoun
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Patrick Aboyoun
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Patrick Aboyoun
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Simon Anders
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Patrick Aboyoun
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Patrick Aboyoun
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Patrick Aboyoun
  • Re: [Bioc-sig-seq] aggregating a RangedData over an IRanges object Simon Anders
• [Bioc-sig-seq] IRanges - start and width replacement methods for RangedData and RangesList Nicolas Delhomme
  • Re: [Bioc-sig-seq] IRanges - start and width replacement methods for RangedData and RangesList Patrick Aboyoun
• [Bioc-sig-seq] About ShortRead Package Pratap, Abhishek
  • Re: [Bioc-sig-seq] About ShortRead Package Martin Morgan
  • Re: [Bioc-sig-seq] About ShortRead Package Pratap, Abhishek
  • Re: [Bioc-sig-seq] About ShortRead Package Pratap, Abhishek
  • Re: [Bioc-sig-seq] About ShortRead Package Martin Morgan
  • Re: [Bioc-sig-seq] About ShortRead Package Pratap, Abhishek
• [Bioc-sig-seq] read paired end alignment results Wu, Xiwei
  • Re: [Bioc-sig-seq] read paired end alignment results Martin Morgan
  • Re: [Bioc-sig-seq] read paired end alignment results Wu, Xiwei
• [Bioc-sig-seq] question about bowtie Bogdan Tanasa
  • Re: [Bioc-sig-seq] question about bowtie Joern Toedling
  • Re: [Bioc-sig-seq] question about bowtie Bogdan Tanasa
• [Bioc-sig-seq] RNAseq stat analysis Eric Bonnet
  • Re: [Bioc-sig-seq] RNAseq stat analysis Simon Anders
• [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Simon Anders
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Patrick Aboyoun
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Simon Anders
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Patrick Aboyoun
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Patrick Aboyoun
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Simon Anders
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Simon Anders
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Simon Anders
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Simon Anders
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Patrick Aboyoun
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Patrick Aboyoun
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Michael Lawrence
  • Re: [Bioc-sig-seq] `+` for GenomeData and coverage from several lanes Martin Morgan
• [Bioc-sig-seq] Protocol for analyzing digital expression profile data xuxiang086
• [Bioc-sig-seq] Rle vs RangedData Simon Anders
  • Re: [Bioc-sig-seq] Rle vs RangedData Michael Lawrence
  • Re: [Bioc-sig-seq] Rle vs RangedData Simon Anders
  • Re: [Bioc-sig-seq] Rle vs RangedData Wolfgang Huber
  • Re: [Bioc-sig-seq] Rle vs RangedData Patrick Aboyoun
• [Bioc-sig-seq] Size of Illumina fastaq files to be read in shortReads Anastasia Gioti
  • Re: [Bioc-sig-seq] Size of Illumina fastaq files to be read in shortReads Martin Morgan
  • Re: [Bioc-sig-seq] Size of Illumina fastaq files to be read in shortReads Kasper Daniel Hansen
• [Bioc-sig-seq] removing variable length 3' adaptor sequence Lana Schaffer
  • Re: [Bioc-sig-seq] removing variable length 3' adaptor sequence Martin Morgan
• Re: [Bioc-sig-seq] [BioC] Error in assign while calling the vmatchPattern function Hervé Pagès
  • Re: [Bioc-sig-seq] [BioC] Error in assign while calling the vmatchPattern function Henrik Bengtsson
• [Bioc-sig-seq] ShortRead, readAligned() and qa() Ivan Gregoretti
  • Re: [Bioc-sig-seq] ShortRead, readAligned() and qa() Martin Morgan
  • Re: [Bioc-sig-seq] ShortRead, readAligned() and qa() Ivan Gregoretti
• [Bioc-sig-seq] Pairwise comparisons of peak sets (for ChIP-seqs or anything else) Ivan Gregoretti
  • Re: [Bioc-sig-seq] Pairwise comparisons of peak sets (for ChIP-seqs or anything else) Thomas Girke
  • Re: [Bioc-sig-seq] Pairwise comparisons of peak sets (for ChIP-seqs or anything else) Ivan Gregoretti
• [Bioc-sig-seq] extendReads() error in chipseq package Rebecca Sun
  • Re: [Bioc-sig-seq] extendReads() error in chipseq package Martin Morgan
  • Re: [Bioc-sig-seq] extendReads() error in chipseq package Rebecca Sun
• [Bioc-sig-seq] viral RNA library Daniel Brewer
• [Bioc-sig-seq] complement and reverseComplement from a character vector Nicolas Delhomme
  • Re: [Bioc-sig-seq] complement and reverseComplement from a character vector Hervé Pagès
  • Re: [Bioc-sig-seq] complement and reverseComplement from a character vector Nicolas Delhomme
  • Re: [Bioc-sig-seq] complement and reverseComplement from a character vector Hervé Pagès
• [Bioc-sig-seq] DGE analysis? Jenny Drnevich
  • Re: [Bioc-sig-seq] DGE analysis? Johannes Waage
  • Re: [Bioc-sig-seq] DGE analysis? Mads Sønderkær
• [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Ivan Gregoretti
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Michael Lawrence
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Hervé Pagès
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Hervé Pagès
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Ivan Gregoretti
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Hervé Pagès
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Ivan Gregoretti
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Hervé Pagès
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Paul Leo
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Hervé Pagès
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11 Paul Leo
• [Bioc-sig-seq] A bug in the AlignedRead coverage method? Nicolas Delhomme
  • Re: [Bioc-sig-seq] A bug in the AlignedRead coverage method? Martin Morgan
  • Re: [Bioc-sig-seq] A bug in the AlignedRead coverage method? Nicolas Delhomme
  • Re: [Bioc-sig-seq] A bug in the AlignedRead coverage method? Martin Morgan
  • Re: [Bioc-sig-seq] A bug in the AlignedRead coverage method? Nicolas Delhomme
  • Re: [Bioc-sig-seq] A bug in the AlignedRead coverage method? Martin Morgan
• [Bioc-sig-seq] Minor bug in method 'aligned' of class 'PairwiseAlignedFixedSubject' Joern Toedling
  • Re: [Bioc-sig-seq] Minor bug in method 'aligned' of class 'PairwiseAlignedFixedSubject' Patrick Aboyoun
• [Bioc-sig-seq] extendRanges - error with AlignedRead vs GenomeData? Paul Leo
• [Bioc-sig-seq] removing non-unique sequences and uniqueFilter Tobias Straub
  • Re: [Bioc-sig-seq] removing non-unique sequences and uniqueFilter Martin Morgan
• [Bioc-sig-seq] the as.matrix method of the RangesMatchingList Nicolas Delhomme
  • Re: [Bioc-sig-seq] the as.matrix method of the RangesMatchingList Wolfgang Huber
  • Re: [Bioc-sig-seq] the as.matrix method of the RangesMatchingList Michael Lawrence
  • Re: [Bioc-sig-seq] the as.matrix method of the RangesMatchingList Nicolas Delhomme
  • Re: [Bioc-sig-seq] the as.matrix method of the RangesMatchingList Michael Lawrence
  • Re: [Bioc-sig-seq] the as.matrix method of the RangesMatchingList Michael Lawrence
• [Bioc-sig-seq] The "ranges" slot in the sread slot of an AlignedRead class Nicolas Delhomme
  • Re: [Bioc-sig-seq] The "ranges" slot in the sread slot of an AlignedRead class Martin Morgan
  • Re: [Bioc-sig-seq] The "ranges" slot in the sread slot of an AlignedRead class Nicolas Delhomme
  • Re: [Bioc-sig-seq] The "ranges" slot in the sread slot of an AlignedRead class Martin Morgan
  • Re: [Bioc-sig-seq] The "ranges" slot in the sread slot of an AlignedRead class Nicolas Delhomme
  • Re: [Bioc-sig-seq] The "ranges" slot in the sread slot of an AlignedRead class Nicolas Delhomme
• [Bioc-sig-seq] calculate alignable portion of the genome João Fadista
  • Re: [Bioc-sig-seq] calculate alignable portion of the genome simon andrews (BI)
  • Re: [Bioc-sig-seq] calculate alignable portion of the genome João Fadista
  • Re: [Bioc-sig-seq] calculate alignable portion of the genome simon andrews (BI)
• [Bioc-sig-seq] refseq to genome location Wu, Xiwei
  • Re: [Bioc-sig-seq] refseq to genome location Michael Lawrence
• [Bioc-sig-seq] pileup() for small RNA sequencing Wu, Xiwei
  • Re: [Bioc-sig-seq] pileup() for small RNA sequencing Martin Morgan
  • Re: [Bioc-sig-seq] pileup() for small RNA sequencing Michael Lawrence
  • Re: [Bioc-sig-seq] pileup() for small RNA sequencing Simon Anders
  • Re: [Bioc-sig-seq] pileup() for small RNA sequencing Wu, Xiwei
• [Bioc-sig-seq] RNA-seq and PET-seq Bogdan Tanasa
• [Bioc-sig-seq] QA for Bowtie Eyad Almasri
  • Re: [Bioc-sig-seq] QA for Bowtie Martin Morgan
• [Bioc-sig-seq] How to install chipseq library in R Jake Lin
  • Re: [Bioc-sig-seq] How to install chipseq library in R Martin Morgan
• [Bioc-sig-seq] Comparing two chipseq position sets Ivan Gregoretti
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Nicolas Delhomme
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Michael Lawrence
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Ivan Gregoretti
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Steve Goldstein
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Steve Lianoglou
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Sean Davis
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Hervé Pagès
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Nicolas Delhomme
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Ivan Gregoretti
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Wolfgang Huber
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Ivan Gregoretti
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Ivan Gregoretti
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Hervé Pagès
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Ivan Gregoretti
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Michael Lawrence
  • Re: [Bioc-sig-seq] Comparing two chipseq position sets Michael Lawrence
• [Bioc-sig-seq] Fast inject into XStringSet objects Thomas Girke
  • Re: [Bioc-sig-seq] Fast inject into XStringSet objects Hervé Pagès
  • Re: [Bioc-sig-seq] Fast inject into XStringSet objects Thomas Girke
  • Re: [Bioc-sig-seq] Fast inject into XStringSet objects Hervé Pagès
  • Re: [Bioc-sig-seq] Fast inject into XStringSet objects Patrick Aboyoun

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