bioc-sig-sequencing  

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• 2010/06/11 [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Janet Young
• 2010/06/11 Re: [Bioc-sig-seq] Process for ChIP-seq FDR determination Michael Lawrence
• 2010/06/11 [Bioc-sig-seq] Process for ChIP-seq FDR determination [email protected]
• 2010/06/11 Re: [Bioc-sig-seq] Problem loading PICS in Windows Gottardo Raphaël
• 2010/06/11 [Bioc-sig-seq] BioC 2010 Conference Update Martin Morgan
• 2010/06/11 Re: [Bioc-sig-seq] Quality Value Analysis from a BStringSet Martin Morgan
• 2010/06/11 Re: [Bioc-sig-seq] Problem loading PICS in Windows Muino, Jose
• 2010/06/11 Re: [Bioc-sig-seq] Quality Value Analysis from a BStringSet Marcus Davy
• 2010/06/10 Re: [Bioc-sig-seq] Browser display question (clarification) Michael Lawrence
• 2010/06/10 [Bioc-sig-seq] Browser display question (clarification) [email protected]
• 2010/06/09 Re: [Bioc-sig-seq] getting integers from SimpleRleViewsList Janet Young
• 2010/06/09 Re: [Bioc-sig-seq] Problem loading PICS in Windows Gottardo Raphaël
• 2010/06/09 [Bioc-sig-seq] Problem loading PICS in Windows Muino, Jose
• 2010/06/08 Re: [Bioc-sig-seq] getting integers from SimpleRleViewsList Michael Lawrence
• 2010/06/08 [Bioc-sig-seq] getting integers from SimpleRleViewsList Janet Young
• 2010/06/07 Re: [Bioc-sig-seq] Browser display question Michael Lawrence
• 2010/06/07 [Bioc-sig-seq] Browser display question [email protected]
• 2010/06/05 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Patrick Aboyoun
• 2010/06/05 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Charles C. Berry
• 2010/06/05 Re: [Bioc-sig-seq] annotatePeakInBatch feature request Dario Strbenac
• 2010/06/05 Re: [Bioc-sig-seq] annotatePeakInBatch feature request Dario Strbenac
• 2010/06/05 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Michael Lawrence
• 2010/06/05 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Stuart Andrews
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Patrick Aboyoun
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Steve Lianoglou
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Steve Lianoglou
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Vincent Carey
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Vincent Carey
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Stuart Andrews
• 2010/06/04 Re: [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Michael Lawrence
• 2010/06/04 [Bioc-sig-seq] Add ability for `subset`ing IRanges-like objects based on their elementMetadata? Steve Lianoglou
• 2010/06/04 Re: [Bioc-sig-seq] annotatePeakInBatch feature request Zhu, Julie
• 2010/06/04 [Bioc-sig-seq] Two Bioconductor Job Opportunities in Seattle Martin Morgan
• 2010/06/03 [Bioc-sig-seq] annotatePeakInBatch feature request Dario Strbenac
• 2010/06/03 Re: [Bioc-sig-seq] Quality Value Analysis from a BStringSet Steve Lianoglou
• 2010/06/03 [Bioc-sig-seq] Quality Value Analysis from a BStringSet Pratap, Abhishek
• 2010/06/03 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor Martin Morgan
• 2010/06/03 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor kanika arora
• 2010/06/02 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor Marcus Davy
• 2010/06/02 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor Martin Morgan
• 2010/06/02 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor Marcus Davy
• 2010/06/02 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor Marcus Davy
• 2010/06/02 Re: [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor Martin Morgan
• 2010/06/02 [Bioc-sig-seq] Problem installing latest version (1.0.2) RSamtools from Bioconductor kanika arora
• 2010/06/01 [Bioc-sig-seq] readBamGappedAlignments() cigar error Craig Johnson
• 2010/05/30 Re: [Bioc-sig-seq] RangedData Ordering Michael Lawrence
• 2010/05/30 [Bioc-sig-seq] RangedData Ordering Dario Strbenac
• 2010/05/27 Re: [Bioc-sig-seq] size of DNAString object Hans-Ulrich Klein
• 2010/05/27 Re: [Bioc-sig-seq] size of DNAString object Vincent Carey
• 2010/05/27 [Bioc-sig-seq] size of DNAString object Hans-Ulrich Klein
• 2010/05/26 Re: [Bioc-sig-seq] using subseq() on a DNAStringSet Andrew Yee
• 2010/05/26 Re: [Bioc-sig-seq] using subseq() on a DNAStringSet Steve Lianoglou
• 2010/05/26 Re: [Bioc-sig-seq] using subseq() on a DNAStringSet Steve Lianoglou
• 2010/05/26 [Bioc-sig-seq] using subseq() on a DNAStringSet Andrew Yee
• 2010/05/24 [Bioc-sig-seq] REVISED BioC 2010 Scholarship Application due date Martin Morgan
• 2010/05/21 Re: [Bioc-sig-seq] MapProfileShort data error? Gottardo Raphaël
• 2010/05/20 [Bioc-sig-seq] RangedData::findOverlaps feature request Zhu, Julie
• 2010/05/18 Re: [Bioc-sig-seq] Could anyone suggest a good software for nucleosome positioning using ChIP-seq data? Martin Morgan
• 2010/05/18 [Bioc-sig-seq] Could anyone suggest a good software for nucleosome positioning using ChIP-seq data? Xuekui Zhang
• 2010/05/18 [Bioc-sig-seq] BioC 2010 Afternoon Practical Proposals Martin Morgan
• 2010/05/06 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Hans-Ulrich Klein
• 2010/05/05 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Martin Morgan
• 2010/05/05 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Martin Morgan
• 2010/05/05 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Hervé Pagès
• 2010/05/05 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Hans-Ulrich Klein
• 2010/05/04 [Bioc-sig-seq] News about PICS/rGADEM/MotIV Droit Arnaud
• 2010/05/03 [Bioc-sig-seq] microarray to RNA-Seq Gordon K Smyth
• 2010/05/03 [Bioc-sig-seq] quantile normalization for RNA-seq Kunbin Qu
• 2010/05/02 Re: [Bioc-sig-seq] microarray to RNA-Seq Wolfgang Huber
• 2010/05/02 Re: [Bioc-sig-seq] microarray to RNA-Seq Alper Yilmaz
• 2010/05/02 [Bioc-sig-seq] microarray to RNA-Seq Alper Yilmaz
• 2010/04/30 Re: [Bioc-sig-seq] ShortRead readAligned Strange Sequences Dario Strbenac
• 2010/04/29 Re: [Bioc-sig-seq] use pipes to map reads with bowtie and convert to BAM James W. MacDonald
• 2010/04/29 [Bioc-sig-seq] use pipes to map reads with bowtie and convert to BAM joseph
• 2010/04/29 Re: [Bioc-sig-seq] ShortRead readAligned Strange Sequences Steve Lianoglou
• 2010/04/29 [Bioc-sig-seq] ShortRead readAligned Strange Sequences Dario Strbenac
• 2010/04/28 Re: [Bioc-sig-seq] determining start position for QualityAlignedXStringSet output from pairwiseAlignment() Andrew Yee
• 2010/04/28 Re: [Bioc-sig-seq] determining start position for QualityAlignedXStringSet output from pairwiseAlignment() Patrick Aboyoun
• 2010/04/28 [Bioc-sig-seq] determining start position for QualityAlignedXStringSet output from pairwiseAlignment() Andrew Yee
• 2010/04/28 Re: [Bioc-sig-seq] Calculating RPKMs from Tophat results : Your advice requested Steve Lianoglou
• 2010/04/28 [Bioc-sig-seq] Calculating RPKMs from Tophat results : Your advice requested Pratap, Abhishek
• 2010/04/28 Re: [Bioc-sig-seq] [BioC] ShortRead with BAM Duke
• 2010/04/28 Re: [Bioc-sig-seq] [BioC] ShortRead with BAM James W. MacDonald
• 2010/04/28 Re: [Bioc-sig-seq] [BioC] ShortRead with BAM Duke
• 2010/04/28 Re: [Bioc-sig-seq] rdapply(): Going from RangedData to RangedData (not to list) Ivan Gregoretti
• 2010/04/27 Re: [Bioc-sig-seq] rdapply(): Going from RangedData to RangedData (not to list) Michael Lawrence
• 2010/04/27 [Bioc-sig-seq] rdapply(): Going from RangedData to RangedData (not to list) Ivan Gregoretti
• 2010/04/27 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Patrick Aboyoun
• 2010/04/27 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Sean Davis
• 2010/04/27 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Ivan Gregoretti
• 2010/04/27 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Sean Davis
• 2010/04/27 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Ivan Gregoretti
• 2010/04/27 Re: [Bioc-sig-seq] coverage() is misbehaving with (apparently sound) GRanges object Ivan Gregoretti
• 2010/04/26 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Patrick Aboyoun
• 2010/04/26 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Ivan Gregoretti
• 2010/04/26 Re: [Bioc-sig-seq] coverage() is misbehaving with (apparently sound) GRanges object Patrick Aboyoun
• 2010/04/26 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Patrick Aboyoun
• 2010/04/26 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Ivan Gregoretti
• 2010/04/26 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Patrick Aboyoun
• 2010/04/26 [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Ivan Gregoretti
• 2010/04/23 Re: [Bioc-sig-seq] GRanges, RangedData coercion Michael Lawrence
• 2010/04/23 [Bioc-sig-seq] coverage() is misbehaving with (apparently sound) GRanges object Ivan Gregoretti
• 2010/04/23 [Bioc-sig-seq] GRanges, RangedData coercion Ivan Gregoretti
• 2010/04/23 Re: [Bioc-sig-seq] Dealing with pileups/duplicates in RNAseq Sean Davis
• 2010/04/23 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Michael Lawrence
• 2010/04/23 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Ivan Gregoretti
• 2010/04/23 [Bioc-sig-seq] Dealing with pileups/duplicates in RNAseq Steve Lianoglou
• 2010/04/23 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Michael Lawrence
• 2010/04/23 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Ivan Gregoretti
• 2010/04/22 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Ivan Gregoretti
• 2010/04/22 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Steve Lianoglou
• 2010/04/22 Re: [Bioc-sig-seq] RangedData objects. Redefining widths with conditions. Ivan Gregoretti
• 2010/04/22 Re: [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments Martin Morgan
• 2010/04/21 Re: [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments Steve Lianoglou
• 2010/04/21 Re: [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments James W. MacDonald
• 2010/04/21 [Bioc-sig-seq] Rsamtools readPileup with Mosaik alignments James MacDonald
• 2010/04/21 [Bioc-sig-seq] ChIP-seq, peak shape Ivan Gregoretti
• 2010/04/20 Re: [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects joseph franklin
• 2010/04/20 Re: [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects Kasper Daniel Hansen
• 2010/04/20 Re: [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects Kasper Daniel Hansen
• 2010/04/20 Re: [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects joseph franklin
• 2010/04/20 Re: [Bioc-sig-seq] Coverage for RangeList? Jane Landolin
• 2010/04/19 Re: [Bioc-sig-seq] Coverage for RangeList? Michael Lawrence
• 2010/04/19 Re: [Bioc-sig-seq] Coverage for RangeList? Patrick Aboyoun
• 2010/04/19 Re: [Bioc-sig-seq] Rsamtools countBam labeling Matthew Young
• 2010/04/19 Re: [Bioc-sig-seq] Coverage for RangeList? Paul Leo
• 2010/04/19 Re: [Bioc-sig-seq] Rsamtools countBam labeling Vincent Carey
• 2010/04/19 [Bioc-sig-seq] Rsamtools countBam labeling Matthew Young
• 2010/04/19 [Bioc-sig-seq] Coverage for RangeList? Jane Landolin
• 2010/04/19 Re: [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects joseph franklin
• 2010/04/19 Re: [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects Kasper Daniel Hansen
• 2010/04/19 [Bioc-sig-seq] Genominator: strategy for combining multiple AlignedRead objects joseph franklin
• 2010/04/16 Re: [Bioc-sig-seq] counts differences among multiple RNA-seq samples Kunbin Qu
• 2010/04/16 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Steffen Neumann
• 2010/04/16 Re: [Bioc-sig-seq] Use rtracklayer to create specific format bed file Michael Lawrence
• 2010/04/16 [Bioc-sig-seq] Use rtracklayer to create specific format bed file [email protected]
• 2010/04/16 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Kasper Daniel Hansen
• 2010/04/16 Re: [Bioc-sig-seq] write.XStringSet() terribly slow Kasper Daniel Hansen
• 2010/04/16 [Bioc-sig-seq] write.XStringSet() terribly slow Steffen Neumann
• 2010/04/15 Re: [Bioc-sig-seq] counts differences among multiple RNA-seq samples Nicolas Delhomme
• 2010/04/15 Re: [Bioc-sig-seq] counts differences among multiple RNA-seq samples Kasper Daniel Hansen
• 2010/04/15 Re: [Bioc-sig-seq] counts differences among multiple RNA-seq samples Nicolas Delhomme
• 2010/04/13 Re: [Bioc-sig-seq] perTile QA element in the FastqQA class Martin Morgan
• 2010/04/13 Re: [Bioc-sig-seq] perTile QA element in the FastqQA class Sirisha Sunkara
• 2010/04/13 Re: [Bioc-sig-seq] perTile QA element in the FastqQA class Sirisha Sunkara
• 2010/04/13 [Bioc-sig-seq] For ChIPpeakAnno Users- [BioC] query and subject hits in findOverlaps through different space names Zhu, Julie
• 2010/04/13 Re: [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges? Michael Lawrence
• 2010/04/13 Re: [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges? Hans-Rudolf Hotz
• 2010/04/13 [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges? margherita mutarelli
• 2010/04/13 Re: [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges? Hans-Rudolf Hotz
• 2010/04/13 Re: [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges? Michael Lawrence
• 2010/04/13 [Bioc-sig-seq] coordinates 0-indexed or 1-indexed in IRanges? margherita mutarelli
• 2010/04/12 Re: [Bioc-sig-seq] subsetting a ShortReadQ object Martin Morgan
• 2010/04/12 [Bioc-sig-seq] subsetting a ShortReadQ object joseph
• 2010/04/12 Re: [Bioc-sig-seq] perTile QA element in the FastqQA class Martin Morgan
• 2010/04/12 [Bioc-sig-seq] perTile QA element in the FastqQA class Sirisha Sunkara
• 2010/04/12 Re: [Bioc-sig-seq] Rsamtools scanBam output to Bam burak kutlu
• 2010/04/12 Re: [Bioc-sig-seq] Rsamtools scanBam output to Bam Sean Davis
• 2010/04/12 Re: [Bioc-sig-seq] Rsamtools scanBam output to Bam Martin Morgan
• 2010/04/12 [Bioc-sig-seq] Rsamtools scanBam output to Bam burak kutlu
• 2010/04/09 [Bioc-sig-seq] putting Paired-End Illumina reads together Lana Schaffer
• 2010/04/06 Re: [Bioc-sig-seq] mget with case-insensitive keys Laurent Gautier
• 2010/04/06 Re: [Bioc-sig-seq] mget with case-insensitive keys xuxiang086
• 2010/04/06 Re: [Bioc-sig-seq] mget with case-insensitive keys Martin Morgan
• 2010/04/06 [Bioc-sig-seq] mget with case-insensitive keys xuxiang086
• 2010/04/06 Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Vincent Carey
• 2010/04/05 Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Kunbin Qu
• 2010/04/05 Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Michael Lawrence
• 2010/04/05 Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Kunbin Qu
• 2010/04/05 Re: [Bioc-sig-seq] example(diffPeakSummary) in chipseq Michael Lawrence
• 2010/04/05 [Bioc-sig-seq] example(diffPeakSummary) in chipseq Kunbin Qu
• 2010/04/05 Re: [Bioc-sig-seq] GenomicFeatures vignette, question on findOverlaps results? Patrick Aboyoun
• 2010/04/05 [Bioc-sig-seq] GenomicFeatures vignette, question on findOverlaps results? [email protected]
• 2010/04/04 Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Martin Morgan
• 2010/04/04 Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Yanwei Tan
• 2010/04/04 Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Martin Morgan
• 2010/04/04 Re: [Bioc-sig-seq] ShortRead internal: too many 'snap' entries Yanwei Tan
• 2010/04/04 Re: [Bioc-sig-seq] read counts of multiple samples across all regions Vincent Carey
• 2010/04/03 [Bioc-sig-seq] read counts of multiple samples across all regions Kunbin Qu
• 2010/04/02 [Bioc-sig-seq] counts differences among multiple RNA-seq samples Kunbin Qu
• 2010/04/02 [Bioc-sig-seq] counts differences among multiple RNA-seq samples Kunbin Qu
• 2010/04/02 Re: [Bioc-sig-seq] Rsamtools append Martin Morgan
• 2010/04/02 [Bioc-sig-seq] Rsamtools append burak kutlu
• 2010/04/02 Re: [Bioc-sig-seq] Fastq File size limit in the Short Read Package Martin Morgan
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Vincent Carey
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Martin Morgan
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Vincent Carey
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Michael Lawrence
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Vincent Carey
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Michael Lawrence
• 2010/04/02 Re: [Bioc-sig-seq] ExpressionSet alikes for next-gen data Vincent Carey
• 2010/04/02 Re: [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges Michael Lawrence
• 2010/04/01 Re: [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges Patrick Aboyoun
• 2010/04/01 Re: [Bioc-sig-seq] GenomicFeatures vignette, problem findOverlaps and 'seqnames' naming convention? Vincent Carey
• 2010/04/01 [Bioc-sig-seq] GenomicFeatures vignette, problem findOverlaps and 'seqnames' naming convention? [email protected]
• 2010/04/01 Re: [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges Michael Lawrence
• 2010/04/01 Re: [Bioc-sig-seq] GenomicFeatures, error in type conversion RangeData to GRanges Patrick Aboyoun
• 2010/04/01 Re: [Bioc-sig-seq] using value in RangedData Charles C. Berry
• 2010/04/01 Re: [Bioc-sig-seq] using value in RangedData Michael Lawrence
• 2010/04/01 [Bioc-sig-seq] using value in RangedData Kunbin Qu

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