bioc-sig-sequencing  

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• [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Janet Young
  • Re: [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Hervé Pagès
  • Re: [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Janet Young
  • Re: [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Janet Young
  • Re: [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Hervé Pagès
• [Bioc-sig-seq] getSeq with space names as factors vs characters Janet Young
  • Re: [Bioc-sig-seq] getSeq with space names as factors vs characters Janet Young
  • Re: [Bioc-sig-seq] getSeq with space names as factors vs characters Hervé Pagès
• Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data James MacDonald
  • Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data James MacDonald
• [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data ivan . borozan
  • Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data Martin Morgan
  • Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data ivan . borozan
• [Bioc-sig-seq] Question about sbanBam() with AB SOLID data ivan . borozan
  • Re: [Bioc-sig-seq] Question about sbanBam() with AB SOLID data James MacDonald
  • Re: [Bioc-sig-seq] Question about sbanBam() with AB SOLID data Martin Morgan
• [Bioc-sig-seq] Rsamtools problem reading seq information ivan . borozan
  • Re: [Bioc-sig-seq] Rsamtools problem reading seq information Martin Morgan
  • Re: [Bioc-sig-seq] Rsamtools problem reading seq information ivan . borozan
• [Bioc-sig-seq] readAligned for Illumina's export file Kunbin Qu
  • Re: [Bioc-sig-seq] readAligned for Illumina's export file Martin Morgan
  • Re: [Bioc-sig-seq] readAligned for Illumina's export file Martin Morgan
  • Re: [Bioc-sig-seq] readAligned for Illumina's export file Kunbin Qu
  • Re: [Bioc-sig-seq] readAligned for Illumina's export file Martin Morgan
• [Bioc-sig-seq] Workshop on Statistical Challenges and Biomedical Applications of Deep Sequencing Data Darlene Goldstein
• [Bioc-sig-seq] Is there a unique function for RangedData? Kunbin Qu
  • Re: [Bioc-sig-seq] Is there a unique function for RangedData? Michael Lawrence
• [Bioc-sig-seq] Rsamtools -getting allele frequencies Paul Leo
  • Re: [Bioc-sig-seq] Rsamtools -getting allele frequencies Sean Davis
  • Re: [Bioc-sig-seq] Rsamtools -getting allele frequencies Martin Morgan
• [Bioc-sig-seq] edgeR plots for paired samples Gordon K Smyth
  • Re: [Bioc-sig-seq] edgeR plots for paired samples Mayte Suarez-Farinas
  • Re: [Bioc-sig-seq] edgeR plots for paired samples Davis McCarthy
• [Bioc-sig-seq] how to access the "unique" function in IRanges Kunbin Qu
  • Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Steve Lianoglou
  • Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Kunbin Qu
  • Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Michael Lawrence
  • Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Kunbin Qu
  • Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Michael Lawrence
• [Bioc-sig-seq] edgeR plots for paired samples Mayte Suarez-Farinas
• [Bioc-sig-seq] Variation in plots of strand specific read coverages [email protected]
• [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Janet Young
  • Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Ivan Gregoretti
  • Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Michael Lawrence
  • [Bioc-sig-seq] trimLRPatterns question Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns question Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns question Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns question Harris A. Jaffee
  • Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Janet Young
  • Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Martin Morgan
  • Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Michael Lawrence
  • [Bioc-sig-seq] qa from ShortRead Kunbin Qu
  • Re: [Bioc-sig-seq] qa from ShortRead Martin Morgan
• Re: [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize +, segfault in MEDIPS.plotCalibrationPlot Nora Rieber
• [Bioc-sig-seq] Bioinformatician position opening at the IMPPC Genomics Unit - Badalona - Spain Lauro Sumoy
• [Bioc-sig-seq] Course: Introduction to R / Bioconductor, Seattle Dec 9 / 10 Martin Morgan
• Re: [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize +, segfault in MEDIPS.plotCalibrationPlot Lukas Chavez Wurm
• [Bioc-sig-seq] RNA-seq: test for within sample differential counts Michael Dondrup
  • Re: [Bioc-sig-seq] RNA-seq: test for within sample differential counts Sean Davis
  • Re: [Bioc-sig-seq] RNA-seq: test for within sample differential counts Michael Dondrup
  • Re: [Bioc-sig-seq] RNA-seq: test for within sample differential counts Michal Okoniewski
• [Bioc-sig-seq] estimate.mean.fraglen question [email protected]
  • Re: [Bioc-sig-seq] estimate.mean.fraglen question Michael Lawrence
  • [Bioc-sig-seq] trimLRPatterns related error Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns related error Harris A. Jaffee
• [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize + segfault in MEDIPS.plotCalibrationPlot Nora Rieber
  • Re: [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize + segfault in MEDIPS.plotCalibrationPlot Steve Lianoglou
• [Bioc-sig-seq] Unable to read a Bowtie file into ShortRead in a Mac OS X version 10.5.8 with R 2.11.1 and ShortRead 1.6.2 Leonardo Collado Torres
• [Bioc-sig-seq] Problem with GenomicRanges: GRanges created prior to R 2.12.0 cannot be loaded with R 2.12.0 Leonardo Collado Torres
  • Re: [Bioc-sig-seq] Problem with GenomicRanges: GRanges created prior to R 2.12.0 cannot be loaded with R 2.12.0 Vincent Carey
  • Re: [Bioc-sig-seq] Problem with GenomicRanges: GRanges created prior to R 2.12.0 cannot be loaded with R 2.12.0 Leonardo Collado Torres
• [Bioc-sig-seq] Mac binaries for R 2.12 fixed Hervé Pagès
• [Bioc-sig-seq] Converting GRanges to data.frame, RangedData, back to GRanges object [email protected]
  • Re: [Bioc-sig-seq] Converting GRanges to data.frame, RangedData, back to GRanges object Michael Lawrence
• [Bioc-sig-seq] Bioconductor 2.7 is released Martin Morgan
• [Bioc-sig-seq] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value Ying Ye
  • Re: [Bioc-sig-seq] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value Mark Robinson
• [Bioc-sig-seq] Error in DGEList function in edgeR Ying Ye
  • Re: [Bioc-sig-seq] Error in DGEList function in edgeR Heidi Dvinge
• [Bioc-sig-seq] visualize peaks in genome (overall) Alper Yilmaz
  • Re: [Bioc-sig-seq] visualize peaks in genome (overall) Michael Lawrence
• [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Charles C. Berry
  • Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Steve Lianoglou
  • Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Charles C. Berry
  • Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Michael Lawrence
  • Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Charles C. Berry
• [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Chris Seidel
  • Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Michael Lawrence
  • Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Hervé Pagès
  • Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Michael Lawrence
  • [Bioc-sig-seq] readFastq Kunbin Qu
  • Re: [Bioc-sig-seq] readFastq Martin Morgan
• [Bioc-sig-seq] BioC2010 Simple RNA-seq Use Case lab [email protected]
  • Re: [Bioc-sig-seq] BioC2010 Simple RNA-seq Use Case lab Steve Lianoglou
  • Re: [Bioc-sig-seq] BioC2010 Simple RNA-seq Use Case lab Martin Morgan
• [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Michael Lawrence
  • Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Ivan Gregoretti
  • Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Kasper Daniel Hansen
  • Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Michael Lawrence
• [Bioc-sig-seq] BLAST from within R Ivan Gregoretti
  • Re: [Bioc-sig-seq] BLAST from within R Martin Morgan
  • Re: [Bioc-sig-seq] BLAST from within R Ivan Gregoretti
• [Bioc-sig-seq] different results between Rsamtools and samtools Benilton Carvalho
  • Re: [Bioc-sig-seq] different results between Rsamtools and samtools Ivan Gregoretti
  • Re: [Bioc-sig-seq] different results between Rsamtools and samtools Benilton Carvalho
  • Re: [Bioc-sig-seq] different results between Rsamtools and samtools Ivan Gregoretti
  • Re: [Bioc-sig-seq] different results between Rsamtools and samtools Benilton Carvalho
  • Re: [Bioc-sig-seq] different results between Rsamtools and samtools Sean Davis
  • [Bioc-sig-seq] Advanced RNA-Seq and ChiP-Seq Data Analysis course, 7-9 March 2011 Gabriella Rustici
• [Bioc-sig-seq] unusual behavior when concatenating DNAStringSets Andrew Yee
  • [Bioc-sig-seq] trimLRPatterns for wild card Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns for wild card Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns for wild card Harris A. Jaffee
  • Re: [Bioc-sig-seq] trimLRPatterns for wild card Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns for wild card Kunbin Qu
  • Re: [Bioc-sig-seq] trimLRPatterns for wild card Harris A. Jaffee
  • Re: [Bioc-sig-seq] unusual behavior when concatenating DNAStringSets Martin Morgan
• [Bioc-sig-seq] Filtering Eland aligned reads on input to ReadAligned [email protected]
  • Re: [Bioc-sig-seq] Filtering Eland aligned reads on input to ReadAligned Martin Morgan
• [Bioc-sig-seq] limit to character length for read.DNAStringSet() Andrew Yee
  • Re: [Bioc-sig-seq] limit to character length for read.DNAStringSet() Steve Lianoglou
  • Re: [Bioc-sig-seq] limit to character length for read.DNAStringSet() Andrew Yee
• [Bioc-sig-seq] R/Bioc workshops at UC Riverside Thomas Girke
  • Re: [Bioc-sig-seq] R/Bioc workshops at UC Riverside Neel Aluru
  • Re: [Bioc-sig-seq] [BioC] R/Bioc workshops at UC Riverside Thomas Girke
  • Re: [Bioc-sig-seq] [BioC] R/Bioc workshops at UC Riverside Neel Aluru
  • Re: [Bioc-sig-seq] [BioC] R/Bioc workshops at UC Riverside Dan Tenenbaum
  • [Bioc-sig-seq] R/Bioc workshops at UC Riverside Thomas Girke
• [Bioc-sig-seq] GenomicRanges endoapply Error Dario Strbenac
  • Re: [Bioc-sig-seq] GenomicRanges endoapply Error Valerie Obenchain
• [Bioc-sig-seq] GRanges In Development Version Dario Strbenac
  • Re: [Bioc-sig-seq] GRanges In Development Version Kasper Daniel Hansen
  • [Bioc-sig-seq] qa error in ShortRead Kunbin Qu
  • Re: [Bioc-sig-seq] qa error in ShortRead. Dario Strbenac
  • Re: [Bioc-sig-seq] qa error in ShortRead Martin Morgan
• [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Ivan Gregoretti
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Michael Lawrence
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Ivan Gregoretti
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Ivan Gregoretti
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Martin Morgan
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Michael Lawrence
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Steve Lianoglou
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Michael Lawrence
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Steve Lianoglou
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Martin Morgan
  • Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Steve Lianoglou
• [Bioc-sig-seq] Combining 2 GRangesList Objects Error Dario Strbenac
  • Re: [Bioc-sig-seq] Combining 2 GRangesList Objects Error mtmorgan
• [Bioc-sig-seq] find overlaps compatible with a transcript Elizabeth Purdom
  • Re: [Bioc-sig-seq] find overlaps compatible with a transcript Hervé Pagès
• [Bioc-sig-seq] X11 fatal IO error [email protected]
  • Re: [Bioc-sig-seq] X11 fatal IO error Ludo Pagie
  • Re: [Bioc-sig-seq] X11 fatal IO error Martin Morgan
  • Re: [Bioc-sig-seq] X11 fatal IO error Ludo Pagie
• [Bioc-sig-seq] merge multiple IRanges Kunbin Qu
  • Re: [Bioc-sig-seq] merge multiple IRanges Michael Lawrence
• [Bioc-sig-seq] How to generate random nucleotide sequences? Purnachander
• [Bioc-sig-seq] How to generate random nucleotide frequencies? Purnachander
• [Bioc-sig-seq] Views on RleList, RangesList doesn't match elements up by name Aaron Statham
  • Re: [Bioc-sig-seq] Views on RleList, RangesList doesn't match elements up by name Michael Lawrence
• [Bioc-sig-seq] rtracklayer::import Ivan Gregoretti
  • Re: [Bioc-sig-seq] rtracklayer::import Michael Lawrence
• [Bioc-sig-seq] Intermittent bug in findOverlaps Aaron Statham
• [Bioc-sig-seq] Dispatch on GenomeDataList or GRangesList Dario Strbenac
  • Re: [Bioc-sig-seq] Dispatch on GenomeDataList or GRangesList Martin Morgan
  • Re: [Bioc-sig-seq] Dispatch on GenomeDataList or GRangesList Michael Lawrence
• [Bioc-sig-seq] problems installing ShortRead on Linux kristen.dang
  • Re: [Bioc-sig-seq] problems installing ShortRead on Linux Vincent Carey
  • Re: [Bioc-sig-seq] problems installing ShortRead on Linux kristen.dang
• [Bioc-sig-seq] readFastq joseph
  • Re: [Bioc-sig-seq] readFastq Martin Morgan
  • [Bioc-sig-seq] Collapse list of DNAStringSet objects into single object Tyler Backman
  • Re: [Bioc-sig-seq] Collapse list of DNAStringSet objects into single object Martin Morgan
• [Bioc-sig-seq] findOverlaps select argument Dario Strbenac
  • Re: [Bioc-sig-seq] findOverlaps select argument Martin Morgan
• [Bioc-sig-seq] readAligned error kirti prakash
  • Re: [Bioc-sig-seq] readAligned error Steve Lianoglou
  • Re: [Bioc-sig-seq] readAligned error kirti prakash
  • Re: [Bioc-sig-seq] readAligned error Steve Lianoglou
  • Re: [Bioc-sig-seq] readAligned error kirti prakash
  • Re: [Bioc-sig-seq] readAligned error Steve Lianoglou
  • Re: [Bioc-sig-seq] readAligned error kirti prakash
• [Bioc-sig-seq] finding the final nucleotide of trimmed reads joseph franklin
  • Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Joern Toedling
  • Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Harris A. Jaffee
  • Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Steve Lianoglou
  • Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads joseph franklin
  • Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Martin Morgan
  • Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Hervé Pagès
• [Bioc-sig-seq] Bug when adding to a GRanges object using double brackets Aaron Statham
  • Re: [Bioc-sig-seq] Bug when adding to a GRanges object using double brackets Martin Morgan
• [Bioc-sig-seq] flank vs shift behaviour on GRanges objects Aaron Statham
  • Re: [Bioc-sig-seq] flank vs shift behaviour on GRanges objects Patrick Aboyoun

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