bioc-sig-sequencing  

Messages by Date

• 2009/11/10 Re: [Bioc-sig-seq] readAligned and BAM format Daniel Klevebring
• 2009/11/10 [Bioc-sig-seq] Creating IRangesList from a list of IRanges David Rossell
• 2009/11/07 Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
• 2009/11/02 Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
• 2009/11/02 Re: [Bioc-sig-seq] readAligned and BAM format Laurent Gautier
• 2009/11/02 Re: [Bioc-sig-seq] GenomicFeatures package Steve Lianoglou
• 2009/11/02 Re: [Bioc-sig-seq] GenomicFeatures package Seth Falcon
• 2009/11/02 Re: [Bioc-sig-seq] GenomicFeatures package Steve Lianoglou
• 2009/11/02 Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
• 2009/11/02 Re: [Bioc-sig-seq] readAligned and BAM format Wu Wei
• 2009/11/02 Re: [Bioc-sig-seq] readAligned and BAM format Martin Morgan
• 2009/11/02 [Bioc-sig-seq] readAligned and BAM format Joern Toedling
• 2009/11/01 Re: [Bioc-sig-seq] GenomicFeatures package Seth Falcon
• 2009/10/31 Re: [Bioc-sig-seq] GenomicFeatures package Michael Lawrence
• 2009/10/31 Re: [Bioc-sig-seq] GenomicFeatures package Martin Morgan
• 2009/10/29 [Bioc-sig-seq] ChIP-seq normalization Bogdan Tanasa
• 2009/10/29 Re: [Bioc-sig-seq] GenomicFeatures package Steve Lianoglou
• 2009/10/28 Re: [Bioc-sig-seq] filter fastQ based on quality score? Martin Morgan
• 2009/10/28 [Bioc-sig-seq] filter fastQ based on quality score? Jennifer Wernegreen
• 2009/10/28 Re: [Bioc-sig-seq] GenomicFeatures package Martin Morgan
• 2009/10/28 Re: [Bioc-sig-seq] GenomicFeatures package Michael Lawrence
• 2009/10/28 [Bioc-sig-seq] GenomicFeatures package [email protected]
• 2009/10/26 Re: [Bioc-sig-seq] Paired end reads -tools? Nicolas Delhomme
• 2009/10/25 [Bioc-sig-seq] Paired end reads -tools? Paul Leo
• 2009/10/23 Re: [Bioc-sig-seq] coverage ranges included in gene ranges and input data Florence Cavalli
• 2009/10/22 Re: [Bioc-sig-seq] coverage ranges included in gene ranges and input data Patrick Aboyoun
• 2009/10/22 Re: [Bioc-sig-seq] coverage ranges included in gene ranges and input data Michael Lawrence
• 2009/10/22 [Bioc-sig-seq] coverage ranges included in gene ranges and input data Florence Cavalli
• 2009/10/20 Re: [Bioc-sig-seq] Error message when working with IRanges package Michael Lawrence
• 2009/10/20 Re: [Bioc-sig-seq] Error message when working with IRanges package Michael Lawrence
• 2009/10/20 [Bioc-sig-seq] Error message when working with IRanges package [email protected]
• 2009/10/19 Re: [Bioc-sig-seq] gdapply, coverage, and widths for all chromosomes Michael Lawrence
• 2009/10/19 Re: [Bioc-sig-seq] gdapply, coverage, and widths for all chromosomes Chris Seidel
• 2009/10/19 Re: [Bioc-sig-seq] gdapply, coverage, and widths for all chromosomes Martin Morgan
• 2009/10/19 Re: [Bioc-sig-seq] gdapply, coverage, and widths for all chromosomes Michael Lawrence
• 2009/10/19 Re: [Bioc-sig-seq] gdapply, coverage, and widths for all chromosomes Deepayan Sarkar
• 2009/10/19 [Bioc-sig-seq] gdapply, coverage, and widths for all chromosomes Chris Seidel
• 2009/10/16 Re: [Bioc-sig-seq] rtracklayer and coverage() from GenomeData Michael Lawrence
• 2009/10/16 [Bioc-sig-seq] rtracklayer and coverage() from GenomeData Chris Seidel
• 2009/10/12 Re: [Bioc-sig-seq] coverage to wig Michael Lawrence
• 2009/10/12 [Bioc-sig-seq] coverage to wig joseph
• 2009/10/12 Re: [Bioc-sig-seq] Annotation of the lactococcus lactis genome Marc Carlson
• 2009/10/09 Re: [Bioc-sig-seq] Mean coverage of capture regions Patrick Aboyoun
• 2009/10/09 Re: [Bioc-sig-seq] Mean coverage of capture regions Sean Davis
• 2009/10/09 [Bioc-sig-seq] Mean coverage of capture regions Dykema, Karl
• 2009/10/09 Re: [Bioc-sig-seq] trimLRPatterns question Harris A. Jaffee
• 2009/10/09 [Bioc-sig-seq] trimLRPatterns question joseph
• 2009/10/09 Re: [Bioc-sig-seq] Fwd: SFC#00118080 - Control over file name format? Martin Morgan
• 2009/10/09 [Bioc-sig-seq] Fwd: SFC#00118080 - Control over file name format? Michael Muratet
• 2009/10/08 Re: [Bioc-sig-seq] Getting file names from list.files in a more useful order Michael Muratet
• 2009/10/07 Re: [Bioc-sig-seq] Getting file names from list.files in a more useful order Martin Morgan
• 2009/10/07 [Bioc-sig-seq] Getting file names from list.files in a more useful order Michael Muratet
• 2009/10/02 Re: [Bioc-sig-seq] Trouble loading development version of ShortRead on OS X Michael Muratet
• 2009/10/02 Re: [Bioc-sig-seq] Trouble loading development version of ShortRead on OS X Michael Muratet
• 2009/10/01 Re: [Bioc-sig-seq] WIG from coverage Michael Lawrence
• 2009/10/01 Re: [Bioc-sig-seq] WIG from coverage Michael Lawrence
• 2009/10/01 [Bioc-sig-seq] New Bioconductor team member Martin Morgan
• 2009/10/01 Re: [Bioc-sig-seq] Trouble loading development version of ShortRead on OS X Martin Morgan
• 2009/10/01 [Bioc-sig-seq] Trouble loading development version of ShortRead on OS X Michael Muratet
• 2009/09/30 Re: [Bioc-sig-seq] WIG from coverage Michael Lawrence
• 2009/09/30 Re: [Bioc-sig-seq] ShortRead and Solexa GA(II) Martin Morgan
• 2009/09/30 [Bioc-sig-seq] ShortRead and Solexa GA(II) Matthew McCormack
• 2009/09/30 Re: [Bioc-sig-seq] WIG from coverage Chris Seidel
• 2009/09/30 Re: [Bioc-sig-seq] WIG from coverage Ivan Gregoretti
• 2009/09/30 Re: [Bioc-sig-seq] Update only specific spaces of RangedData Michael Lawrence
• 2009/09/29 Re: [Bioc-sig-seq] Update only specific spaces of RangedData Patrick Aboyoun
• 2009/09/29 Re: [Bioc-sig-seq] WIG from coverage Michael Lawrence
• 2009/09/29 Re: [Bioc-sig-seq] Update only specific spaces of RangedData Patrick Aboyoun
• 2009/09/29 Re: [Bioc-sig-seq] Update only specific spaces of RangedData Michael Lawrence
• 2009/09/29 Re: [Bioc-sig-seq] WIG from coverage Michael Lawrence
• 2009/09/29 [Bioc-sig-seq] WIG from coverage Seidel, Christopher
• 2009/09/28 Re: [Bioc-sig-seq] ChIP-seq readReads question Patrick Aboyoun
• 2009/09/28 [Bioc-sig-seq] ChIP-seq readReads question [email protected]
• 2009/09/25 Re: [Bioc-sig-seq] Update only specific spaces of RangedData Patrick Aboyoun
• 2009/09/24 Re: [Bioc-sig-seq] Minimal short sequences position/orientation container Ivan Gregoretti
• 2009/09/24 Re: [Bioc-sig-seq] Minimal short sequences position/orientation container Sean Davis
• 2009/09/24 Re: [Bioc-sig-seq] Minimal short sequences position/orientation container Ivan Gregoretti
• 2009/09/24 [Bioc-sig-seq] Update only specific spaces of RangedData Christian Ruckert
• 2009/09/23 Re: [Bioc-sig-seq] Minimal short sequences position/orientation container Patrick Aboyoun
• 2009/09/23 [Bioc-sig-seq] Minimal short sequences position/orientation container Ivan Gregoretti
• 2009/09/18 Re: [Bioc-sig-seq] BED to WIG format conversion Michael Lawrence
• 2009/09/18 Re: [Bioc-sig-seq] Annotation of the lactococcus lactis genome Marc Carlson
• 2009/09/18 Re: [Bioc-sig-seq] Creating TSS Regions IRanges with Strand Information Dario Strbenac
• 2009/09/18 Re: [Bioc-sig-seq] BED to WIG format conversion Ivan Gregoretti
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Michael Lawrence
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Patrick Aboyoun
• 2009/09/17 Re: [Bioc-sig-seq] Creating TSS Regions IRanges with Strand Information Michael Lawrence
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Michael Lawrence
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Patrick Aboyoun
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Sean Davis
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Michael Lawrence
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Patrick Aboyoun
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Michael Lawrence
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Ivan Gregoretti
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Sean Davis
• 2009/09/17 Re: [Bioc-sig-seq] BED to WIG format conversion Michael Lawrence
• 2009/09/17 [Bioc-sig-seq] BED to WIG format conversion Ivan Gregoretti
• 2009/09/16 [Bioc-sig-seq] Annotation of the lactococcus lactis genome Karin Bjerre
• 2009/09/15 Re: [Bioc-sig-seq] Question when running ShortRead to generate a QA report Martin Morgan
• 2009/09/15 [Bioc-sig-seq] Rolexa quality scores Fuad Gwadry
• 2009/09/14 Re: [Bioc-sig-seq] Creating TSS Regions IRanges with Strand Information Michael Lawrence
• 2009/09/14 [Bioc-sig-seq] Creating TSS Regions IRanges with Strand Information Dario Strbenac
• 2009/09/14 [Bioc-sig-seq] Question when running ShortRead to generate a QA report [email protected]
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Steve Lianoglou
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Patrick Aboyoun
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Steve Lianoglou
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Martin Morgan
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Patrick Aboyoun
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Michael Lawrence
• 2009/09/11 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Patrick Aboyoun
• 2009/09/11 Re: [Bioc-sig-seq] Slow/hanged QA on Illumina Data Harris A. Jaffee
• 2009/09/10 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Steve Lianoglou
• 2009/09/10 Re: [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Michael Lawrence
• 2009/09/10 Re: [Bioc-sig-seq] Slow/hanged QA on Illumina Data Martin Morgan
• 2009/09/10 Re: [Bioc-sig-seq] Slow/hanged QA on Illumina Data Pratap, Abhishek
• 2009/09/10 Re: [Bioc-sig-seq] Slow/hanged QA on Illumina Data Ivan Gregoretti
• 2009/09/10 [Bioc-sig-seq] IRanges::overlap interface, help writing idiomatic code? Steve Lianoglou
• 2009/09/10 [Bioc-sig-seq] Slow/hanged QA on Illumina Data Pratap, Abhishek
• 2009/09/10 Re: [Bioc-sig-seq] Illumina CIF format for ShortRead? Michael Muratet
• 2009/09/10 Re: [Bioc-sig-seq] Illumina CIF format for ShortRead? Martin Morgan
• 2009/09/10 Re: [Bioc-sig-seq] Illumina CIF format for ShortRead? Martin Morgan
• 2009/09/10 [Bioc-sig-seq] Illumina CIF format for ShortRead? Michael Muratet
• 2009/09/08 Re: [Bioc-sig-seq] Running rtracklayer vignette Michael Lawrence
• 2009/09/08 [Bioc-sig-seq] Running rtracklayer vignette [email protected]
• 2009/09/04 [Bioc-sig-seq] Problems with diffPeakSummary Sini Junttila
• 2009/09/04 [Bioc-sig-seq] (no subject) Sini Junttila
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Martin Morgan
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Michael Lawrence
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Martin Morgan
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Ivan Gregoretti
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Martin Morgan
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Patrick Aboyoun
• 2009/09/02 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Ivan Gregoretti
• 2009/09/01 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Martin Morgan
• 2009/09/01 Re: [Bioc-sig-seq] release of chipseq package Patrick Aboyoun
• 2009/09/01 Re: [Bioc-sig-seq] release of chipseq package xiaoa
• 2009/08/31 Re: [Bioc-sig-seq] AlignedRead and complex subsetting Steve Lianoglou
• 2009/08/31 [Bioc-sig-seq] AlignedRead and complex subsetting Ivan Gregoretti
• 2009/08/28 Re: [Bioc-sig-seq] Consolidate AlignedRead objects Martin Morgan
• 2009/08/28 Re: [Bioc-sig-seq] Consolidate AlignedRead objects Ivan Gregoretti
• 2009/08/27 Re: [Bioc-sig-seq] Consolidate AlignedRead objects Martin Morgan
• 2009/08/27 [Bioc-sig-seq] Consolidate AlignedRead objects Ivan Gregoretti
• 2009/08/27 Re: [Bioc-sig-seq] frequency of A, C, G, T Patrick Aboyoun
• 2009/08/27 Re: [Bioc-sig-seq] frequency of A, C, G, T Ali Mohamadian
• 2009/08/27 Re: [Bioc-sig-seq] frequency of A, C, G, T Nenad Bartonicek
• 2009/08/27 [Bioc-sig-seq] frequency of A, C, G, T Ali Mohamadian
• 2009/08/26 Re: [Bioc-sig-seq] readAligned and coverage methods of the short read package Martin Morgan
• 2009/08/26 Re: [Bioc-sig-seq] readAligned and coverage methods of the short read package Sirisha Sunkara
• 2009/08/26 Re: [Bioc-sig-seq] tag density plots Bogdan Tanasa
• 2009/08/26 Re: [Bioc-sig-seq] ShortRead: puzzled with memory issues over readAligned, readFasta and qa Martin Morgan
• 2009/08/26 Re: [Bioc-sig-seq] tag density plots Michael Lawrence
• 2009/08/26 Re: [Bioc-sig-seq] 2D plots gbucci
• 2009/08/25 [Bioc-sig-seq] ShortRead: puzzled with memory issues over readAligned, readFasta and qa Leonardo Collado Torres
• 2009/08/25 [Bioc-sig-seq] tag density plots Bogdan Tanasa
• 2009/08/25 Re: [Bioc-sig-seq] 2D plots Bogdan Tanasa
• 2009/08/25 Re: [Bioc-sig-seq] 2D plots Michael Lawrence
• 2009/08/25 [Bioc-sig-seq] 2D plots Bogdan Tanasa
• 2009/08/24 Re: [Bioc-sig-seq] readAligned and coverage methods of the short read package Martin Morgan
• 2009/08/24 [Bioc-sig-seq] readAligned and coverage methods of the short read package Sirisha Sunkara
• 2009/08/24 Re: [Bioc-sig-seq] What to do when single reads make up a large percentage of counts? Ludo Pagie
• 2009/08/20 Re: [Bioc-sig-seq] using shortRead for Bowtie alignments burak kutlu
• 2009/08/20 Re: [Bioc-sig-seq] using shortRead for Bowtie alignments Martin Morgan
• 2009/08/20 Re: [Bioc-sig-seq] using shortRead for Bowtie alignments James Bullard
• 2009/08/20 [Bioc-sig-seq] using shortRead for Bowtie alignments burak kutlu
• 2009/08/19 Re: [Bioc-sig-seq] Rle, RleViews Patrick Aboyoun
• 2009/08/19 Re: [Bioc-sig-seq] reading 454 data with ShortRead Martin Morgan
• 2009/08/19 Re: [Bioc-sig-seq] reading 454 data with ShortRead Dan Bolser
• 2009/08/19 Re: [Bioc-sig-seq] reading 454 data with ShortRead Dan Bolser
• 2009/08/19 Re: [Bioc-sig-seq] Rle, RleViews Michael Lawrence
• 2009/08/19 Re: [Bioc-sig-seq] Rle, RleViews Simon Anders
• 2009/08/18 Re: [Bioc-sig-seq] Import Solexa Data Martin Morgan
• 2009/08/18 [Bioc-sig-seq] Import Solexa Data John Lande
• 2009/08/18 Re: [Bioc-sig-seq] Assessing Transcriptome Coverage Michael Dondrup
• 2009/08/18 Re: [Bioc-sig-seq] Assessing Transcriptome Coverage Abhishek Pratap
• 2009/08/18 Re: [Bioc-sig-seq] Assessing Transcriptome Coverage Abhishek Pratap
• 2009/08/18 Re: [Bioc-sig-seq] Assessing Transcriptome Coverage Sean Davis
• 2009/08/16 Re: [Bioc-sig-seq] Assessing Transcriptome Coverage Sean Davis
• 2009/08/16 Re: [Bioc-sig-seq] Assessing Transcriptome Coverage Abhishek Pratap
• 2009/08/12 [Bioc-sig-seq] Assessing Transcriptome Coverage Abhishek Pratap
• 2009/08/12 Re: [Bioc-sig-seq] Peaks Deepayan Sarkar
• 2009/08/11 [Bioc-sig-seq] What to do when single reads make up a large percentage of counts? Jenny Drnevich
• 2009/08/11 [Bioc-sig-seq] Peaks Ali Mohamadian
• 2009/08/06 Re: [Bioc-sig-seq] AlignedRead and IRanges Martin Morgan
• 2009/08/06 Re: [Bioc-sig-seq] match, vmatch Hervé Pagès
• 2009/08/06 [Bioc-sig-seq] AlignedRead and IRanges James Bullard
• 2009/08/06 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Martin Morgan
• 2009/08/06 Re: [Bioc-sig-seq] alignQuality Martin Morgan
• 2009/08/06 [Bioc-sig-seq] alignQuality Fuad Gwadry
• 2009/08/06 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Martin Morgan
• 2009/08/06 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Fuad Gwadry
• 2009/08/05 [Bioc-sig-seq] match, vmatch James Bullard
• 2009/08/05 Re: [Bioc-sig-seq] Reading quality scores from Bowtie (using Piple Martin Morgan
• 2009/08/05 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Martin Morgan
• 2009/08/05 Re: [Bioc-sig-seq] Reading quality scores from Bowtie (using Piple Fuad Gwadry
• 2009/08/05 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Fuad Gwadry
• 2009/08/04 Re: [Bioc-sig-seq] readAligned in ShortRead package Ingunn Berget
• 2009/08/04 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Martin Morgan
• 2009/08/04 Re: [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Martin Morgan
• 2009/08/04 Re: [Bioc-sig-seq] readAligned in ShortRead package Martin Morgan
• 2009/08/04 [Bioc-sig-seq] Problem with ShortRead reading quality scores from bowtie Fuad Gwadry

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