bioc-sig-sequencing

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2010/11/18 [Bioc-sig-seq] Refseq vs Ensembl kirti prakash
2010/11/18 Re: [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Hervé Pagès
2010/11/18 Re: [Bioc-sig-seq] getSeq with space names as factors vs characters Hervé Pagès
2010/11/18 Re: [Bioc-sig-seq] positionFilter in ShortRead Martin Morgan
2010/11/18 [Bioc-sig-seq] positionFilter in ShortRead Kunbin Qu
2010/11/17 Re: [Bioc-sig-seq] RNA-Seq - analysis of time series data? Mark Robinson
2010/11/17 [Bioc-sig-seq] RNA-Seq - analysis of time series data? Jakob Hedegaard
2010/11/15 [Bioc-sig-seq] getSeq and Btaurus$chrUn.scaffolds - ambiguous name error Janet Young
2010/11/15 Re: [Bioc-sig-seq] getSeq with space names as factors vs characters Janet Young
2010/11/15 [Bioc-sig-seq] getSeq with space names as factors vs characters Janet Young
2010/11/15 Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data ivan . borozan
2010/11/11 Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data James MacDonald
2010/11/11 Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data James MacDonald
2010/11/11 Re: [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data Martin Morgan
2010/11/11 Re: [Bioc-sig-seq] Question about sbanBam() with AB SOLID data Martin Morgan
2010/11/11 [Bioc-sig-seq] Fwd: Re: Question about sbanBam() with AB SOLID data ivan . borozan
2010/11/11 Re: [Bioc-sig-seq] Question about sbanBam() with AB SOLID data James MacDonald
2010/11/11 [Bioc-sig-seq] Question about sbanBam() with AB SOLID data ivan . borozan
2010/11/11 Re: [Bioc-sig-seq] Rsamtools problem reading seq information ivan . borozan
2010/11/11 Re: [Bioc-sig-seq] Rsamtools problem reading seq information Martin Morgan
2010/11/11 [Bioc-sig-seq] Rsamtools problem reading seq information ivan . borozan
2010/11/05 Re: [Bioc-sig-seq] readAligned for Illumina's export file Martin Morgan
2010/11/05 Re: [Bioc-sig-seq] readAligned for Illumina's export file Kunbin Qu
2010/11/05 Re: [Bioc-sig-seq] readAligned for Illumina's export file Martin Morgan
2010/11/05 Re: [Bioc-sig-seq] readAligned for Illumina's export file Martin Morgan
2010/11/05 [Bioc-sig-seq] readAligned for Illumina's export file Kunbin Qu
2010/11/04 Re: [Bioc-sig-seq] edgeR plots for paired samples Davis McCarthy
2010/11/04 [Bioc-sig-seq] Workshop on Statistical Challenges and Biomedical Applications of Deep Sequencing Data Darlene Goldstein
2010/11/04 Re: [Bioc-sig-seq] edgeR plots for paired samples Mayte Suarez-Farinas
2010/11/04 Re: [Bioc-sig-seq] Rsamtools -getting allele frequencies Martin Morgan
2010/11/04 Re: [Bioc-sig-seq] Is there a unique function for RangedData? Michael Lawrence
2010/11/04 Re: [Bioc-sig-seq] Rsamtools -getting allele frequencies Sean Davis
2010/11/03 [Bioc-sig-seq] Is there a unique function for RangedData? Kunbin Qu
2010/11/03 [Bioc-sig-seq] Rsamtools -getting allele frequencies Paul Leo
2010/11/03 [Bioc-sig-seq] edgeR plots for paired samples Gordon K Smyth
2010/11/03 Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Michael Lawrence
2010/11/03 Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Kunbin Qu
2010/11/03 Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Michael Lawrence
2010/11/03 Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Kunbin Qu
2010/11/03 Re: [Bioc-sig-seq] how to access the "unique" function in IRanges Steve Lianoglou
2010/11/03 [Bioc-sig-seq] how to access the "unique" function in IRanges Kunbin Qu
2010/11/03 [Bioc-sig-seq] edgeR plots for paired samples Mayte Suarez-Farinas
2010/11/03 [Bioc-sig-seq] Advanced RNA-Seq and ChiP-Seq Data Analysis course, 7-9 March 2011 Gabriella Rustici
2010/11/02 Re: [Bioc-sig-seq] qa from ShortRead Martin Morgan
2010/11/02 [Bioc-sig-seq] qa from ShortRead Kunbin Qu
2010/11/01 Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Michael Lawrence
2010/11/01 Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Martin Morgan
2010/11/01 Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Janet Young
2010/10/31 [Bioc-sig-seq] Variation in plots of strand specific read coverages [email protected]
2010/10/30 Re: [Bioc-sig-seq] trimLRPatterns question Harris A. Jaffee
2010/10/29 Re: [Bioc-sig-seq] trimLRPatterns question Kunbin Qu
2010/10/29 Re: [Bioc-sig-seq] trimLRPatterns question Harris A. Jaffee
2010/10/29 [Bioc-sig-seq] trimLRPatterns question Kunbin Qu
2010/10/29 Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Michael Lawrence
2010/10/28 Re: [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Ivan Gregoretti
2010/10/28 [Bioc-sig-seq] RangedData versus GenomicRanges/GRanges Janet Young
2010/10/26 Re: [Bioc-sig-seq] trimLRPatterns related error Harris A. Jaffee
2010/10/26 [Bioc-sig-seq] trimLRPatterns related error Kunbin Qu
2010/10/26 Re: [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize +, segfault in MEDIPS.plotCalibrationPlot Nora Rieber
2010/10/26 [Bioc-sig-seq] Bioinformatician position opening at the IMPPC Genomics Unit - Badalona - Spain Lauro Sumoy
2010/10/25 [Bioc-sig-seq] Course: Introduction to R / Bioconductor, Seattle Dec 9 / 10 Martin Morgan
2010/10/25 Re: [Bioc-sig-seq] RNA-seq: test for within sample differential counts Michal Okoniewski
2010/10/25 Re: [Bioc-sig-seq] RNA-seq: test for within sample differential counts Michael Dondrup
2010/10/25 Re: [Bioc-sig-seq] RNA-seq: test for within sample differential counts Sean Davis
2010/10/25 Re: [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize +, segfault in MEDIPS.plotCalibrationPlot Lukas Chavez Wurm
2010/10/25 [Bioc-sig-seq] RNA-seq: test for within sample differential counts Michael Dondrup
2010/10/22 Re: [Bioc-sig-seq] estimate.mean.fraglen question Michael Lawrence
2010/10/22 [Bioc-sig-seq] estimate.mean.fraglen question [email protected]
2010/10/22 Re: [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize + segfault in MEDIPS.plotCalibrationPlot Steve Lianoglou
2010/10/22 [Bioc-sig-seq] error with MEDIPS.CpGenrich -> resize + segfault in MEDIPS.plotCalibrationPlot Nora Rieber
2010/10/21 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
2010/10/21 [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
2010/10/20 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
2010/10/20 [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
2010/10/19 [Bioc-sig-seq] Mac binaries for R 2.12 fixed Hervé Pagès
2010/10/19 Re: [Bioc-sig-seq] Converting GRanges to data.frame, RangedData, back to GRanges object Michael Lawrence
2010/10/19 [Bioc-sig-seq] Converting GRanges to data.frame, RangedData, back to GRanges object [email protected]
2010/10/19 Re: [Bioc-sig-seq] X11 fatal IO error Ludo Pagie
2010/10/18 Re: [Bioc-sig-seq] Coercion of GenomeData to RangedData Michael Lawrence
2010/10/18 Re: [Bioc-sig-seq] Coercion of GenomeData to RangedData Dario Strbenac
2010/10/18 Re: [Bioc-sig-seq] Coercion of GenomeData to RangedData Dario Strbenac
2010/10/18 Re: [Bioc-sig-seq] Coercion of GenomeData to RangedData Michael Lawrence
2010/10/18 Re: [Bioc-sig-seq] Coercion of GenomeData to RangedData Vincent Carey
2010/10/18 [Bioc-sig-seq] Coercion of GenomeData to RangedData Dario Strbenac
2010/10/18 Re: [Bioc-sig-seq] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value Mark Robinson
2010/10/18 [Bioc-sig-seq] Bioconductor 2.7 is released Martin Morgan
2010/10/18 [Bioc-sig-seq] EdgeR questions in analyzing 454 data-about prior.n, TMM, and p_value Ying Ye
2010/10/15 Re: [Bioc-sig-seq] readFastq Martin Morgan
2010/10/15 [Bioc-sig-seq] readFastq Kunbin Qu
2010/10/15 Re: [Bioc-sig-seq] Error in DGEList function in edgeR Heidi Dvinge
2010/10/15 [Bioc-sig-seq] Error in DGEList function in edgeR Ying Ye
2010/10/14 Re: [Bioc-sig-seq] visualize peaks in genome (overall) Michael Lawrence
2010/10/14 [Bioc-sig-seq] visualize peaks in genome (overall) Alper Yilmaz
2010/10/12 Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Michael Lawrence
2010/10/11 Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Charles C. Berry
2010/10/11 Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Michael Lawrence
2010/10/11 Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Kasper Daniel Hansen
2010/10/11 Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Charles C. Berry
2010/10/11 Re: [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Steve Lianoglou
2010/10/11 [Bioc-sig-seq] Cached GenomicRanges or RangedData Objects? Charles C. Berry
2010/10/06 Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Kasper Daniel Hansen
2010/10/06 Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Hervé Pagès
2010/10/06 Re: [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Michael Lawrence
2010/10/06 [Bioc-sig-seq] drop factor level for seqnames of a GRanges object Chris Seidel
2010/10/05 Re: [Bioc-sig-seq] BioC2010 Simple RNA-seq Use Case lab Martin Morgan
2010/10/05 Re: [Bioc-sig-seq] BioC2010 Simple RNA-seq Use Case lab Steve Lianoglou
2010/10/05 [Bioc-sig-seq] BioC2010 Simple RNA-seq Use Case lab [email protected]
2010/10/01 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Steve Lianoglou
2010/10/01 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Martin Morgan
2010/10/01 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Steve Lianoglou
2010/10/01 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Michael Lawrence
2010/10/01 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Steve Lianoglou
2010/10/01 Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Michael Lawrence
2010/10/01 Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Kasper Daniel Hansen
2010/10/01 Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Ivan Gregoretti
2010/09/30 Re: [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Michael Lawrence
2010/09/30 [Bioc-sig-seq] GenomicRanges wishlist: IntervalTrees for GRanges Kasper Daniel Hansen
2010/09/30 Re: [Bioc-sig-seq] BLAST from within R Ivan Gregoretti
2010/09/30 Re: [Bioc-sig-seq] BLAST from within R Martin Morgan
2010/09/30 [Bioc-sig-seq] BLAST from within R Ivan Gregoretti
2010/09/28 Re: [Bioc-sig-seq] different results between Rsamtools and samtools Sean Davis
2010/09/28 Re: [Bioc-sig-seq] different results between Rsamtools and samtools Benilton Carvalho
2010/09/28 Re: [Bioc-sig-seq] different results between Rsamtools and samtools Ivan Gregoretti
2010/09/28 Re: [Bioc-sig-seq] different results between Rsamtools and samtools Benilton Carvalho
2010/09/28 Re: [Bioc-sig-seq] different results between Rsamtools and samtools Ivan Gregoretti
2010/09/28 [Bioc-sig-seq] different results between Rsamtools and samtools Benilton Carvalho
2010/09/24 Re: [Bioc-sig-seq] unusual behavior when concatenating DNAStringSets Martin Morgan
2010/09/23 Re: [Bioc-sig-seq] trimLRPatterns for wild card Harris A. Jaffee
2010/09/23 Re: [Bioc-sig-seq] trimLRPatterns for wild card Kunbin Qu
2010/09/23 Re: [Bioc-sig-seq] trimLRPatterns for wild card Kunbin Qu
2010/09/23 Re: [Bioc-sig-seq] trimLRPatterns for wild card Harris A. Jaffee
2010/09/23 Re: [Bioc-sig-seq] trimLRPatterns for wild card Harris A. Jaffee
2010/09/23 [Bioc-sig-seq] trimLRPatterns for wild card Kunbin Qu
2010/09/22 [Bioc-sig-seq] unusual behavior when concatenating DNAStringSets Andrew Yee
2010/09/22 Re: [Bioc-sig-seq] Filtering Eland aligned reads on input to ReadAligned Martin Morgan
2010/09/22 [Bioc-sig-seq] Filtering Eland aligned reads on input to ReadAligned [email protected]
2010/09/22 Re: [Bioc-sig-seq] limit to character length for read.DNAStringSet() Andrew Yee
2010/09/22 Re: [Bioc-sig-seq] limit to character length for read.DNAStringSet() Steve Lianoglou
2010/09/22 [Bioc-sig-seq] limit to character length for read.DNAStringSet() Andrew Yee
2010/09/21 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
2010/09/20 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Michael Lawrence
2010/09/20 Re: [Bioc-sig-seq] GenomicRanges endoapply Error Valerie Obenchain
2010/09/20 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Martin Morgan
2010/09/20 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
2010/09/19 Re: [Bioc-sig-seq] find overlaps compatible with a transcript Hervé Pagès
2010/09/17 Re: [Bioc-sig-seq] [BioC] R/Bioc workshops at UC Riverside Dan Tenenbaum
2010/09/17 Re: [Bioc-sig-seq] [BioC] R/Bioc workshops at UC Riverside Neel Aluru
2010/09/17 Re: [Bioc-sig-seq] [BioC] R/Bioc workshops at UC Riverside Thomas Girke
2010/09/17 Re: [Bioc-sig-seq] R/Bioc workshops at UC Riverside Neel Aluru
2010/09/16 [Bioc-sig-seq] R/Bioc workshops at UC Riverside Thomas Girke
2010/09/15 [Bioc-sig-seq] GenomicRanges endoapply Error Dario Strbenac
2010/09/14 Re: [Bioc-sig-seq] qa error in ShortRead Martin Morgan
2010/09/14 Re: [Bioc-sig-seq] qa error in ShortRead. Dario Strbenac
2010/09/14 [Bioc-sig-seq] qa error in ShortRead Kunbin Qu
2010/09/14 Re: [Bioc-sig-seq] GRanges In Development Version Kasper Daniel Hansen
2010/09/14 [Bioc-sig-seq] GRanges In Development Version Dario Strbenac
2010/09/14 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Ivan Gregoretti
2010/09/14 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Ivan Gregoretti
2010/09/14 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Michael Lawrence
2010/09/14 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Ivan Gregoretti
2010/09/14 [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
2010/09/14 Re: [Bioc-sig-seq] Resizing a GRanges object with elements on the "*" strand Leonardo Collado Torres
2010/09/14 Re: [Bioc-sig-seq] Combining 2 GRangesList Objects Error mtmorgan
2010/09/13 [Bioc-sig-seq] Combining 2 GRangesList Objects Error Dario Strbenac
2010/09/13 [Bioc-sig-seq] find overlaps compatible with a transcript Elizabeth Purdom
2010/09/13 Re: [Bioc-sig-seq] X11 fatal IO error Martin Morgan
2010/09/12 Re: [Bioc-sig-seq] X11 fatal IO error Ludo Pagie
2010/09/12 [Bioc-sig-seq] X11 fatal IO error [email protected]
2010/09/08 Re: [Bioc-sig-seq] merge multiple IRanges Michael Lawrence
2010/09/08 [Bioc-sig-seq] merge multiple IRanges Kunbin Qu
2010/09/07 Re: [Bioc-sig-seq] IRange overlap percentage Michael Lawrence
2010/09/07 [Bioc-sig-seq] IRange overlap percentage Kunbin Qu
2010/09/06 [Bioc-sig-seq] How to generate random nucleotide sequences? Purnachander
2010/09/06 [Bioc-sig-seq] How to generate random nucleotide frequencies? Purnachander
2010/09/06 Re: [Bioc-sig-seq] Views on RleList, RangesList doesn't match elements up by name Michael Lawrence
2010/09/06 [Bioc-sig-seq] Views on RleList, RangesList doesn't match elements up by name Aaron Statham
2010/09/03 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Michael Lawrence
2010/09/03 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Michael Lawrence
2010/09/03 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Martin Morgan
2010/09/03 Re: [Bioc-sig-seq] GRanges, failure assigning chromosome lengths Chris Seidel
2010/09/03 Re: [Bioc-sig-seq] Dispatch on GenomeDataList or GRangesList Michael Lawrence
2010/09/02 Re: [Bioc-sig-seq] Dispatch on GenomeDataList or GRangesList Martin Morgan
2010/09/02 Re: [Bioc-sig-seq] rtracklayer::import Michael Lawrence
2010/09/02 [Bioc-sig-seq] rtracklayer::import Ivan Gregoretti
2010/09/02 [Bioc-sig-seq] Intermittent bug in findOverlaps Aaron Statham
2010/09/01 [Bioc-sig-seq] Dispatch on GenomeDataList or GRangesList Dario Strbenac
2010/09/01 Re: [Bioc-sig-seq] Collapse list of DNAStringSet objects into single object Martin Morgan
2010/09/01 Re: [Bioc-sig-seq] problems installing ShortRead on Linux kristen.dang
2010/09/01 [Bioc-sig-seq] Collapse list of DNAStringSet objects into single object Tyler Backman
2010/09/01 Re: [Bioc-sig-seq] problems installing ShortRead on Linux Vincent Carey
2010/09/01 [Bioc-sig-seq] problems installing ShortRead on Linux kristen.dang
2010/08/31 Re: [Bioc-sig-seq] findOverlaps select argument Martin Morgan
2010/08/31 Re: [Bioc-sig-seq] readFastq Martin Morgan
2010/08/31 [Bioc-sig-seq] readFastq joseph
2010/08/31 [Bioc-sig-seq] findOverlaps select argument Dario Strbenac
2010/08/30 Re: [Bioc-sig-seq] readAligned error kirti prakash
2010/08/30 Re: [Bioc-sig-seq] readAligned error Steve Lianoglou
2010/08/30 Re: [Bioc-sig-seq] readAligned error kirti prakash
2010/08/30 Re: [Bioc-sig-seq] readAligned error Steve Lianoglou
2010/08/30 Re: [Bioc-sig-seq] readAligned error kirti prakash