bioc-sig-sequencing  

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• [Bioc-sig-seq] ChIPpeakAnno fails to interpret standard chromosome name and strandedness Ivan Gregoretti
• [Bioc-sig-seq] Annotation of ChIP-Seq peaks [email protected]
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Michael Lawrence
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Julie Zhu
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Michael Lawrence
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Julie Zhu
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Michael Lawrence
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Julie Zhu
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Seth Falcon
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Julie Zhu
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Seth Falcon
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Julie Zhu
  • Re: [Bioc-sig-seq] Annotation of ChIP-Seq peaks Muino, Jose
• Re: [Bioc-sig-seq] uniqueFilter in the ShortRead package - Integer overflow - bug fix Nora Rieber
  • Re: [Bioc-sig-seq] uniqueFilter in the ShortRead package - Integer overflow - bug fix Martin Morgan
• [Bioc-sig-seq] strandedness bug in Rsamtools? Steve Lianoglou
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Steve Lianoglou
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Martin Morgan
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Martin Morgan
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Vincent Carey
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Martin Morgan
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Martin Morgan
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Vincent Carey
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Steve Lianoglou
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Steve Lianoglou
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Martin Morgan
  • Re: [Bioc-sig-seq] strandedness bug in Rsamtools? Steve Lianoglou
• [Bioc-sig-seq] uniqueFilter in the ShortRead package Jason Lu
  • Re: [Bioc-sig-seq] uniqueFilter in the ShortRead package Martin Morgan
• [Bioc-sig-seq] mixing 2 fastQ files Ramzi TEMANNI
  • Re: [Bioc-sig-seq] mixing 2 fastQ files Ramzi TEMANNI
  • Re: [Bioc-sig-seq] mixing 2 fastQ files Martin Morgan
• [Bioc-sig-seq] Trimming Solexa/Illumina primers/adaptors; ShortRead Johannes Rainer
  • Re: [Bioc-sig-seq] Trimming Solexa/Illumina primers/adaptors; ShortRead Martin Morgan
  • Re: [Bioc-sig-seq] Trimming Solexa/Illumina primers/adaptors; ShortRead Johannes Rainer
• [Bioc-sig-seq] countOverlaps Help Dario Strbenac
  • Re: [Bioc-sig-seq] countOverlaps Help Vincent Carey
  • Re: [Bioc-sig-seq] countOverlaps Help Michael Lawrence
• [Bioc-sig-seq] read sequences from the web Thomas Girke
  • Re: [Bioc-sig-seq] read sequences from the web Hervé Pagès
  • Re: [Bioc-sig-seq] read sequences from the web Thomas Girke
  • Re: [Bioc-sig-seq] read sequences from the web Hervé Pagès
  • Re: [Bioc-sig-seq] read sequences from the web Thomas Girke
  • Re: [Bioc-sig-seq] read sequences from the web Laurent Gautier
  • Re: [Bioc-sig-seq] read sequences from the web Michael Lawrence
  • Re: [Bioc-sig-seq] read sequences from the web Seth Falcon
• [Bioc-sig-seq] Operations between sets of ChIP-seq peak locations Ivan Gregoretti
  • Re: [Bioc-sig-seq] Operations between sets of ChIP-seq peak locations Steve Lianoglou
  • Re: [Bioc-sig-seq] Operations between sets of ChIP-seq peak locations Michael Lawrence
  • Re: [Bioc-sig-seq] Operations between sets of ChIP-seq peak locations Ivan Gregoretti
• [Bioc-sig-seq] smoothing techniques Bogdan Tanasa
  • Re: [Bioc-sig-seq] smoothing techniques Patrick Aboyoun
• [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! Hongtao Hu
  • Re: [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! Harris A. Jaffee
  • Re: [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! Harris A. Jaffee
  • Re: [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! joseph
  • Re: [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! Harris A. Jaffee
  • Re: [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! joseph
  • Re: [Bioc-sig-seq] ABout how to trim out the adaptor of soleax short data! Harris A. Jaffee
• [Bioc-sig-seq] unique reads count joseph
  • Re: [Bioc-sig-seq] unique reads count Martin Morgan
  • Re: [Bioc-sig-seq] unique reads count joseph
  • Re: [Bioc-sig-seq] unique reads count Martin Morgan
  • Re: [Bioc-sig-seq] unique reads count joseph
  • Re: [Bioc-sig-seq] unique reads count Martin Morgan
• [Bioc-sig-seq] Rsamtools Aurelie Laugraud
  • Re: [Bioc-sig-seq] Rsamtools Martin Morgan
  • Re: [Bioc-sig-seq] Rsamtools Martin Morgan
  • Re: [Bioc-sig-seq] Rsamtools Steve Lianoglou
  • Re: [Bioc-sig-seq] Rsamtools Dykema, Karl
  • Re: [Bioc-sig-seq] Rsamtools Steve Lianoglou
  • Re: [Bioc-sig-seq] Rsamtools Martin Morgan
  • Re: [Bioc-sig-seq] Rsamtools Dykema, Karl
  • Re: [Bioc-sig-seq] Rsamtools Martin Morgan
  • Re: [Bioc-sig-seq] Rsamtools Vincent Carey
• [Bioc-sig-seq] Shuffling genomic positions at random Ivan Gregoretti
• [Bioc-sig-seq] trimLRPatterns vs vmatchPattern Marcus Davy
  • Re: [Bioc-sig-seq] trimLRPatterns vs vmatchPattern Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns vs vmatchPattern Marcus Davy
  • Re: [Bioc-sig-seq] trimLRPatterns vs vmatchPattern Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns vs vmatchPattern Marcus Davy
• [Bioc-sig-seq] EdgeR bug (stable (1.4.3) and devel (1.5.5)) : the genes "columns" does not get ordered as the "counts" in the topTags results. Nicolas Delhomme
  • Re: [Bioc-sig-seq] EdgeR bug (stable (1.4.3) and devel (1.5.5)) : the genes "columns" does not get ordered as the "counts" in the topTags results. Gordon K Smyth
• [Bioc-sig-seq] Calculating insert size for paired-end /mate pair samples Pratap, Abhishek
  • Re: [Bioc-sig-seq] Calculating insert size for paired-end /mate pair samples Tyler Backman
  • Re: [Bioc-sig-seq] Calculating insert size for paired-end /mate pair samples Tyler Backman
  • Re: [Bioc-sig-seq] Calculating insert size for paired-end /mate pair samples Pratap, Abhishek
• [Bioc-sig-seq] Extract masked sequences Droit Arnaud
  • Re: [Bioc-sig-seq] Extract masked sequences Patrick Aboyoun
  • Re: [Bioc-sig-seq] Extract masked sequences Droit Arnaud
  • Re: [Bioc-sig-seq] Extract masked sequences Michael Lawrence
• [Bioc-sig-seq] 'coverage' error message (2) [email protected]
  • Re: [Bioc-sig-seq] 'coverage' error message (2) Kasper Daniel Hansen
• [Bioc-sig-seq] 2 post-doc and one PhD positions at the Bioinformatics and Genomics Department of the Centro de Investigaciones Príncipe Felipe, Valencia, Spa in. Ana Conesa
• [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Steve Lianoglou
  • Re: [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Martin Morgan
  • Re: [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Steve Lianoglou
  • Re: [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Steve Lianoglou
  • Re: [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Steve Lianoglou
  • Re: [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Michael Lawrence
  • Re: [Bioc-sig-seq] Rsamtools: Select reads on a chromosome Martin Morgan
• [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Ramzi TEMANNI
  • Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Martin Morgan
  • Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Ramzi TEMANNI
  • Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Yanwei Tan
  • Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Martin Morgan
  • Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Yanwei Tan
  • Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Martin Morgan
  • [Bioc-sig-seq] example(diffPeakSummary) in chipseq Kunbin Qu
  • Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Michael Lawrence
  • Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Kunbin Qu
  • Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Michael Lawrence
  • Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Kunbin Qu
  • Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Vincent Carey
• [Bioc-sig-seq] Normalization tools in Genominator Michael Muratet
  • Re: [Bioc-sig-seq] Normalization tools in Genominator Kasper Daniel Hansen
• [Bioc-sig-seq] 'coverage' error message [email protected]
  • Re: [Bioc-sig-seq] 'coverage' error message Patrick Aboyoun
• [Bioc-sig-seq] 'agregate' error message [email protected]
  • [Bioc-sig-seq] 'agregate' error message [email protected]
  • [Bioc-sig-seq] 'agregate' error message [email protected]
  • Re: [Bioc-sig-seq] 'agregate' error message Patrick Aboyoun
• [Bioc-sig-seq] idiogram Ivan Gregoretti
• [Bioc-sig-seq] Illumina vs. ABI Solid Droit Arnaud
  • Re: [Bioc-sig-seq] Illumina vs. ABI Solid Steve Lianoglou
  • Re: [Bioc-sig-seq] Illumina vs. ABI Solid Sulev Kõks
  • Re: [Bioc-sig-seq] Illumina vs. ABI Solid Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] Illumina vs. ABI Solid Wilhelm Brian
• [Bioc-sig-seq] Genominator Michael Muratet
  • Re: [Bioc-sig-seq] Genominator Seth Falcon
  • Re: [Bioc-sig-seq] Genominator Patrick Aboyoun
  • Re: [Bioc-sig-seq] Genominator Michael Muratet
  • Re: [Bioc-sig-seq] Genominator Kasper Daniel Hansen
• [Bioc-sig-seq] ploting paired-end reads using GenomeGraphs Ramzi TEMANNI
  • Re: [Bioc-sig-seq] ploting paired-end reads using GenomeGraphs Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] ploting paired-end reads using GenomeGraphs Ramzi TEMANNI
  • Re: [Bioc-sig-seq] ploting paired-end reads using GenomeGraphs Kasper Daniel Hansen
• [Bioc-sig-seq] Querying Pubmed using search terms? Purnachander
  • Re: [Bioc-sig-seq] Querying Pubmed using search terms? Sean Davis
• [Bioc-sig-seq] Probs installing dev version of Rsamtools Pratap, Abhishek
  • Re: [Bioc-sig-seq] Probs installing dev version of Rsamtools Martin Morgan
  • Re: [Bioc-sig-seq] Probs installing dev version of Rsamtools Pratap, Abhishek
  • Re: [Bioc-sig-seq] Probs installing dev version of Rsamtools Seth Falcon
• [Bioc-sig-seq] finding consensus sites in a set of DNA sequences Arici Pogonici
  • Re: [Bioc-sig-seq] finding consensus sites in a set of DNA sequences Wolfgang Huber
  • Re: [Bioc-sig-seq] finding consensus sites in a set of DNA sequences Wolfgang Huber
• [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} Ramzi TEMANNI
  • Re: [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} Sean Davis
  • Re: [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} Ramzi TEMANNI
  • Re: [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} James W. MacDonald
  • Re: [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} James W. MacDonald
  • Re: [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} Ramzi TEMANNI
  • Re: [Bioc-sig-seq] unexpected genes names list using getBM{biomaRt} Mohamed-Ramzi TEMANNI
• [Bioc-sig-seq] Error while installing Rolexa Purnachander
  • Re: [Bioc-sig-seq] Error while installing Rolexa Vincent Carey
• [Bioc-sig-seq] NA vector for alignQuality with Bowtie output Ramzi TEMANNI
  • Re: [Bioc-sig-seq] NA vector for alignQuality with Bowtie output Martin Morgan
  • Re: [Bioc-sig-seq] NA vector for alignQuality with Bowtie output Ramzi TEMANNI
  • Re: [Bioc-sig-seq] NA vector for alignQuality with Bowtie output Steve Lianoglou
• [Bioc-sig-seq] extract id from ShortRead Ramzi TEMANNI
  • Re: [Bioc-sig-seq] extract id from ShortRead Sean Davis
• [Bioc-sig-seq] Confused on fastq to numeric conversion (SolexaPipeline 1.3+) Leonardo Collado Torres
  • Re: [Bioc-sig-seq] Confused on fastq to numeric conversion (SolexaPipeline 1.3+) Martin Morgan
  • Re: [Bioc-sig-seq] Confused on fastq to numeric conversion (SolexaPipeline 1.3+) Leonardo Collado Torres
• [Bioc-sig-seq] Job add: Postdoctoral Bioinformatician , Statistical Geneticist Paul Leo
• [Bioc-sig-seq] behavior of XStringSet after c() step Thomas Girke
  • Re: [Bioc-sig-seq] behavior of XStringSet after c() step Hervé Pagès
  • Re: [Bioc-sig-seq] behavior of XStringSet after c() step Thomas Girke
  • Re: [Bioc-sig-seq] behavior of XStringSet after c() step Hervé Pagès
  • Re: [Bioc-sig-seq] behavior of XStringSet after c() step Thomas Girke
  • [Bioc-sig-seq] Plotting Coverage for inhouse genome Pratap, Abhishek
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Michael Lawrence
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Patrick Aboyoun
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Pratap, Abhishek
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Pratap, Abhishek
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Martin Morgan
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Pratap, Abhishek
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Pratap, Abhishek
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] Plotting Coverage for inhouse genome Harris A. Jaffee
• [Bioc-sig-seq] rtracklayer and all_mrna track Dario Strbenac
  • Re: [Bioc-sig-seq] rtracklayer and all_mrna track Michael Lawrence
• [Bioc-sig-seq] Rolexa run-time error in batch mode Michael Muratet
  • Re: [Bioc-sig-seq] Rolexa run-time error in batch mode Seth Falcon
  • Re: [Bioc-sig-seq] Rolexa run-time error in batch mode Michael Muratet
• [Bioc-sig-seq] Creating IRangesList from a list of IRanges David Rossell
  • Re: [Bioc-sig-seq] Creating IRangesList from a list of IRanges Steve Lianoglou
  • Re: [Bioc-sig-seq] Creating IRangesList from a list of IRanges David Rossell
• [Bioc-sig-seq] readAligned and BAM format Joern Toedling
  • Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
  • Re: [Bioc-sig-seq] readAligned and BAM format Wu Wei
  • Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
  • Re: [Bioc-sig-seq] readAligned and BAM format Daniel Klevebring
  • Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
  • Re: [Bioc-sig-seq] readAligned and BAM format Pratap, Abhishek
  • Re: [Bioc-sig-seq] readAligned and BAM format Sean Davis
  • Re: [Bioc-sig-seq] readAligned and BAM format Pratap, Abhishek
  • Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
  • Re: [Bioc-sig-seq] readAligned and BAM format Pratap, Abhishek
  • Re: [Bioc-sig-seq] readAligned and BAM format Pratap, Abhishek

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