April 2010 Archives by thread

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Starting: Thu Apr 1 04:11:13 CEST 2010
Ending: Fri Apr 30 01:10:10 CEST 2010
Messages: 136

• [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   pterry at huskers.unl.edu
  • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Martin Morgan
    • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Michael Lawrence
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Martin Morgan
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Michael Lawrence
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Michael Lawrence
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Patrick Aboyoun
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Michael Lawrence
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Patrick Aboyoun
      • [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges   Michael Lawrence
• [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Martin Morgan
  • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Vincent Carey
    • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Michael Lawrence
      • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Vincent Carey
      • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Michael Lawrence
      • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Vincent Carey
      • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Martin Morgan
      • [Bioc-sig-seq] ExpressionSet alikes for next-gen data   Vincent Carey
• [Bioc-sig-seq] using value in RangedData   Kunbin Qu
  • [Bioc-sig-seq] using value in RangedData   Michael Lawrence
  • [Bioc-sig-seq] using value in RangedData   Charles C. Berry
  • [Bioc-sig-seq] counts differences among multiple RNA-seq samples   Kunbin Qu
    • [Bioc-sig-seq] counts differences among multiple RNA-seq samples   Kunbin Qu
      • [Bioc-sig-seq] counts differences among multiple RNA-seq samples   Nicolas Delhomme
      • [Bioc-sig-seq] counts differences among multiple RNA-seq samples   Kasper Daniel Hansen
      • [Bioc-sig-seq] counts differences among multiple RNA-seq samples   Nicolas Delhomme
      • [Bioc-sig-seq] counts differences among multiple RNA-seq samples   Kunbin Qu
• [Bioc-sig-seq] GenomicFeatures vignette, problem findOverlaps and 'seqnames' naming convention?   pterry at huskers.unl.edu
  • [Bioc-sig-seq] GenomicFeatures vignette, problem findOverlaps and 'seqnames' naming convention?   Vincent Carey
• [Bioc-sig-seq] Fastq File size limit in the Short Read Package   Martin Morgan
• [Bioc-sig-seq] Rsamtools append   burak kutlu
  • [Bioc-sig-seq] Rsamtools append   Martin Morgan
• [Bioc-sig-seq] read counts of multiple samples across all regions   Kunbin Qu
  • [Bioc-sig-seq] read counts of multiple samples across all regions   Vincent Carey
• [Bioc-sig-seq] ShortRead internal: too many 'snap' entries   Yanwei Tan
  • [Bioc-sig-seq] ShortRead internal: too many 'snap' entries   Martin Morgan
    • [Bioc-sig-seq] ShortRead internal: too many 'snap' entries   Yanwei Tan
      • [Bioc-sig-seq] ShortRead internal: too many 'snap' entries   Martin Morgan
    • [Bioc-sig-seq] example(diffPeakSummary) in chipseq   Kunbin Qu
      • [Bioc-sig-seq] example(diffPeakSummary) in chipseq   Michael Lawrence
      • [Bioc-sig-seq] example(diffPeakSummary) in chipseq   Kunbin Qu
      • [Bioc-sig-seq] example(diffPeakSummary) in chipseq   Michael Lawrence
      • [Bioc-sig-seq] example(diffPeakSummary) in chipseq   Kunbin Qu
      • [Bioc-sig-seq] example(diffPeakSummary) in chipseq   Vincent Carey
• [Bioc-sig-seq] GenomicFeatures vignette, question on findOverlaps results?   pterry at huskers.unl.edu
  • [Bioc-sig-seq] GenomicFeatures vignette, question on findOverlaps results?   Patrick Aboyoun
• [Bioc-sig-seq] mget with case-insensitive keys   xuxiang086
  • [Bioc-sig-seq] mget with case-insensitive keys   Martin Morgan
  • [Bioc-sig-seq] mget with case-insensitive keys   xuxiang086
    • [Bioc-sig-seq] mget with case-insensitive keys   Laurent Gautier
• [Bioc-sig-seq] putting Paired-End Illumina reads together   Lana Schaffer
• [Bioc-sig-seq] Rsamtools scanBam output to Bam   burak kutlu
  • [Bioc-sig-seq] Rsamtools scanBam output to Bam   Martin Morgan
  • [Bioc-sig-seq] Rsamtools scanBam output to Bam   Sean Davis
    • [Bioc-sig-seq] Rsamtools scanBam output to Bam   burak kutlu
• [Bioc-sig-seq] perTile QA element in the FastqQA class   Sirisha Sunkara
  • [Bioc-sig-seq] perTile QA element in the FastqQA class   Martin Morgan
    • [Bioc-sig-seq] perTile QA element in the FastqQA class   Sirisha Sunkara
      • [Bioc-sig-seq] perTile QA element in the FastqQA class   Sirisha Sunkara
      • [Bioc-sig-seq] perTile QA element in the FastqQA class   Martin Morgan
• [Bioc-sig-seq] subsetting a ShortReadQ object   joseph
  • [Bioc-sig-seq] subsetting a ShortReadQ object   Martin Morgan
• [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges?   margherita mutarelli
  • [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges?   Michael Lawrence
  • [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges?   Hans-Rudolf Hotz
• [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges?   margherita mutarelli
  • [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges?   Hans-Rudolf Hotz
    • [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges?   Michael Lawrence
• [Bioc-sig-seq] For ChIPpeakAnno Users- [BioC] query and subject hits in findOverlaps through different space names   Zhu, Julie
• [Bioc-sig-seq] write.XStringSet() terribly slow   Steffen Neumann
  • [Bioc-sig-seq] write.XStringSet() terribly slow   Kasper Daniel Hansen
    • [Bioc-sig-seq] write.XStringSet() terribly slow   Kasper Daniel Hansen
• [Bioc-sig-seq] Use rtracklayer to create specific format bed file   pterry at huskers.unl.edu
  • [Bioc-sig-seq] Use rtracklayer to create specific format bed file   Michael Lawrence
• [Bioc-sig-seq] write.XStringSet() terribly slow   Steffen Neumann
• [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   joseph franklin
  • [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   Kasper Daniel Hansen
    • [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   joseph franklin
    • [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   joseph franklin
      • [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   Kasper Daniel Hansen
      • [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   Kasper Daniel Hansen
      • [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects   joseph franklin
• [Bioc-sig-seq] Coverage for RangeList?   Jane Landolin
  • [Bioc-sig-seq] Coverage for RangeList?   Paul Leo
    • [Bioc-sig-seq] Coverage for RangeList?   Patrick Aboyoun
  • [Bioc-sig-seq] Coverage for RangeList?   Michael Lawrence
    • [Bioc-sig-seq] Coverage for RangeList?   Jane Landolin
• [Bioc-sig-seq] Rsamtools countBam labeling   Matthew Young
  • [Bioc-sig-seq] Rsamtools countBam labeling   Vincent Carey
    • [Bioc-sig-seq] Rsamtools countBam labeling   Matthew Young
• [Bioc-sig-seq] ChIP-seq, peak shape   Ivan Gregoretti
• [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments   James MacDonald
  • [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments   James W. MacDonald
  • [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments   Steve Lianoglou
  • [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments   Martin Morgan
• [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Ivan Gregoretti
  • [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Steve Lianoglou
    • [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Ivan Gregoretti
    • [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Ivan Gregoretti
      • [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Michael Lawrence
      • [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Ivan Gregoretti
      • [Bioc-sig-seq] RangedData objects. Redefining widths with conditions.   Michael Lawrence
• [Bioc-sig-seq] Dealing with pileups/duplicates in RNAseq   Steve Lianoglou
  • [Bioc-sig-seq] Dealing with pileups/duplicates in RNAseq   Sean Davis
• [Bioc-sig-seq] GRanges, RangedData coercion   Ivan Gregoretti
  • [Bioc-sig-seq] GRanges, RangedData coercion   Michael Lawrence
• [Bioc-sig-seq] coverage() is misbehaving with (apparently sound) GRanges object   Ivan Gregoretti
  • [Bioc-sig-seq] coverage() is misbehaving with (apparently sound) GRanges object   Patrick Aboyoun
    • [Bioc-sig-seq] coverage() is misbehaving with (apparently sound) GRanges object   Ivan Gregoretti
• [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Ivan Gregoretti
  • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Patrick Aboyoun
    • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Ivan Gregoretti
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Patrick Aboyoun
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Ivan Gregoretti
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Patrick Aboyoun
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Ivan Gregoretti
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Sean Davis
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Ivan Gregoretti
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Sean Davis
      • [Bioc-sig-seq] GRanges, failure assigning chromosome lengths   Patrick Aboyoun
• [Bioc-sig-seq] rdapply(): Going from RangedData to RangedData (not to list)   Ivan Gregoretti
  • [Bioc-sig-seq] rdapply(): Going from RangedData to RangedData (not to list)   Michael Lawrence
    • [Bioc-sig-seq] rdapply(): Going from RangedData to RangedData (not to list)   Ivan Gregoretti
• [Bioc-sig-seq] [BioC] ShortRead with BAM   Duke
  • [Bioc-sig-seq] [BioC] ShortRead with BAM   James W. MacDonald
    • [Bioc-sig-seq] [BioC] ShortRead with BAM   Duke
• [Bioc-sig-seq] Calculating RPKMs from Tophat results : Your advice requested   Pratap, Abhishek
  • [Bioc-sig-seq] Calculating RPKMs from Tophat results : Your advice requested   Steve Lianoglou
• [Bioc-sig-seq] determining start position for QualityAlignedXStringSet output from pairwiseAlignment()   Andrew Yee
  • [Bioc-sig-seq] determining start position for QualityAlignedXStringSet output from pairwiseAlignment()   Patrick Aboyoun
    • [Bioc-sig-seq] determining start position for QualityAlignedXStringSet output from pairwiseAlignment()   Andrew Yee
• [Bioc-sig-seq] ShortRead readAligned Strange Sequences   Dario Strbenac
  • [Bioc-sig-seq] ShortRead readAligned Strange Sequences   Steve Lianoglou
    • [Bioc-sig-seq] ShortRead readAligned Strange Sequences   Dario Strbenac
• [Bioc-sig-seq] use pipes to map reads with bowtie and convert to BAM   joseph
  • [Bioc-sig-seq] use pipes to map reads with bowtie and convert to BAM   James W. MacDonald

Last message date: Fri Apr 30 01:10:10 CEST 2010
Archived on: Fri Apr 30 18:42:07 CEST 2010

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