bioc-sig-sequencing  

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• 2010/08/30 Re: [Bioc-sig-seq] readAligned error Steve Lianoglou
• 2010/08/30 [Bioc-sig-seq] readAligned error kirti prakash
• 2010/08/28 Re: [Bioc-sig-seq] Bug when adding to a GRanges object using double brackets Martin Morgan
• 2010/08/27 Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Hervé Pagès
• 2010/08/26 Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Martin Morgan
• 2010/08/26 Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads joseph franklin
• 2010/08/26 Re: [Bioc-sig-seq] flank vs shift behaviour on GRanges objects Valerie Obenchain
• 2010/08/26 Re: [Bioc-sig-seq] ShortRead qa() no longer working Martin Morgan
• 2010/08/26 Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Steve Lianoglou
• 2010/08/26 Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Harris A. Jaffee
• 2010/08/26 Re: [Bioc-sig-seq] finding the final nucleotide of trimmed reads Joern Toedling
• 2010/08/26 [Bioc-sig-seq] finding the final nucleotide of trimmed reads joseph franklin
• 2010/08/26 [Bioc-sig-seq] Bug when adding to a GRanges object using double brackets Aaron Statham
• 2010/08/26 Re: [Bioc-sig-seq] flank vs shift behaviour on GRanges objects Aaron Statham
• 2010/08/25 Re: [Bioc-sig-seq] flank vs shift behaviour on GRanges objects Patrick Aboyoun
• 2010/08/25 [Bioc-sig-seq] flank vs shift behaviour on GRanges objects Aaron Statham
• 2010/08/25 Re: [Bioc-sig-seq] ShortRead qa() no longer working Dario Strbenac
• 2010/08/25 Re: [Bioc-sig-seq] ShortRead qa() no longer working Martin Morgan
• 2010/08/25 [Bioc-sig-seq] ShortRead qa() no longer working Dario Strbenac
• 2010/08/24 Re: [Bioc-sig-seq] subsetting a DNAStringSet Andrew Yee
• 2010/08/23 Re: [Bioc-sig-seq] findOverlaps Documented Option Michael Lawrence
• 2010/08/23 Re: [Bioc-sig-seq] adding columns to values of GenomicRange objects Jiang, Lichun (NIH/NIDDK) [F]
• 2010/08/23 Re: [Bioc-sig-seq] findOverlaps Documented Option Martin Morgan
• 2010/08/23 Re: [Bioc-sig-seq] subsetting a DNAStringSet Martin Morgan
• 2010/08/23 Re: [Bioc-sig-seq] adding columns to values of GenomicRange objects Steve Lianoglou
• 2010/08/23 [Bioc-sig-seq] adding columns to values of GenomicRange objects Jiang, Lichun (NIH/NIDDK) [F]
• 2010/08/23 [Bioc-sig-seq] subsetting a DNAStringSet Andrew Yee
• 2010/08/22 [Bioc-sig-seq] findOverlaps Documented Option Dario Strbenac
• 2010/08/22 [Bioc-sig-seq] findOverlaps minoverlap Dario Strbenac
• 2010/08/22 Re: [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead Martin Morgan
• 2010/08/22 Re: [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead joseph
• 2010/08/22 Re: [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead Martin Morgan
• 2010/08/22 Re: [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead joseph
• 2010/08/22 Re: [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead Steve Lianoglou
• 2010/08/22 Re: [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead Steve Lianoglou
• 2010/08/22 [Bioc-sig-seq] read length distribution from ShortReadQ or AlignedRead joseph
• 2010/08/19 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Hervé Pagès
• 2010/08/18 Re: [Bioc-sig-seq] coverage vectors and subseq kirti prakash
• 2010/08/18 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming JASREET HUNDAL
• 2010/08/18 Re: [Bioc-sig-seq] coverage vectors and subseq kirti prakash
• 2010/08/18 Re: [Bioc-sig-seq] coverage vectors and subseq Martin Morgan
• 2010/08/17 Re: [Bioc-sig-seq] coverage vectors and subseq kirti prakash
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming Martin Morgan
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming Steve Lianoglou
• 2010/08/17 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Steve Lianoglou
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming JASREET HUNDAL
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming Martin Morgan
• 2010/08/17 Re: [Bioc-sig-seq] coverage vectors and subseq Martin Morgan
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming Harris A. Jaffee
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming Martin Morgan
• 2010/08/17 [Bioc-sig-seq] coverage vectors and subseq kirti prakash
• 2010/08/17 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming JASREET HUNDAL
• 2010/08/16 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Hervé Pagès
• 2010/08/16 Re: [Bioc-sig-seq] trimLRPatterns - adaptor trimming Marcus Davy
• 2010/08/16 [Bioc-sig-seq] trimLRPatterns - adaptor trimming JASREET HUNDAL
• 2010/08/16 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Steve Lianoglou
• 2010/08/16 Re: [Bioc-sig-seq] Implementing workflow.pdf (BioC2010 lab handout) Michael Lawrence
• 2010/08/16 [Bioc-sig-seq] Implementing workflow.pdf (BioC2010 lab handout) [email protected]
• 2010/08/16 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Hervé Pagès
• 2010/08/16 Re: [Bioc-sig-seq] Counting mismatches with vmatchPattern Marcus Davy
• 2010/08/13 Re: [Bioc-sig-seq] overlaying coverage plots LU Zen
• 2010/08/13 Re: [Bioc-sig-seq] overlaying coverage plots Wolfgang Huber
• 2010/08/13 Re: [Bioc-sig-seq] overlaying coverage plots LU Zen
• 2010/08/12 Re: [Bioc-sig-seq] Converting SimpleRleViewsList to SimpleRleList Michael Lawrence
• 2010/08/12 Re: [Bioc-sig-seq] Counting mismatches with vmatchPattern Hervé Pagès
• 2010/08/12 Re: [Bioc-sig-seq] overlaying coverage plots Martin Morgan
• 2010/08/12 Re: [Bioc-sig-seq] overlaying coverage plots Martin Morgan
• 2010/08/12 [Bioc-sig-seq] overlaying coverage plots LU Zen
• 2010/08/12 [Bioc-sig-seq] Converting SimpleRleViewsList to SimpleRleList Johannes Waage
• 2010/08/10 Re: [Bioc-sig-seq] Problem compiling Rsamtools 1.0.7 Martin Morgan
• 2010/08/10 [Bioc-sig-seq] Problem compiling Rsamtools 1.0.7 Lapointe, David
• 2010/08/10 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Ivan Gregoretti
• 2010/08/10 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Ivan Gregoretti
• 2010/08/09 [Bioc-sig-seq] Counting mismatches with vmatchPattern Marcus Davy
• 2010/08/08 Re: [Bioc-sig-seq] rtracklayer - suppress track line Michael Lawrence
• 2010/08/06 Re: [Bioc-sig-seq] rtracklayer - suppress track line Chris Seidel
• 2010/08/06 Re: [Bioc-sig-seq] GRanges tabulate the coverage Patrick Aboyoun
• 2010/08/06 [Bioc-sig-seq] rtracklayer - suppress track line Chris Seidel
• 2010/08/06 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Ivan Gregoretti
• 2010/08/05 Re: [Bioc-sig-seq] GRanges tabulate the coverage Patrick Aboyoun
• 2010/08/05 Re: [Bioc-sig-seq] GRanges resize Behaviour Patrick Aboyoun
• 2010/08/05 [Bioc-sig-seq] GRanges tabulate the coverage Dario Strbenac
• 2010/08/05 [Bioc-sig-seq] GRanges resize Behaviour Dario Strbenac
• 2010/08/05 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Patrick Aboyoun
• 2010/08/05 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Michael Lawrence
• 2010/08/05 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Patrick Aboyoun
• 2010/08/05 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Ivan Gregoretti
• 2010/08/05 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Michael Lawrence
• 2010/08/05 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Michael Lawrence
• 2010/08/04 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Ivan Gregoretti
• 2010/08/04 Re: [Bioc-sig-seq] rtracklayer and import()ing into GRanges Michael Lawrence
• 2010/08/04 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Marc Carlson
• 2010/08/04 Re: [Bioc-sig-seq] PairwiseAlignedXStringSet to PairwiseAlignedFixedSubject Stefan Bentink
• 2010/08/04 Re: [Bioc-sig-seq] PairwiseAlignedXStringSet to PairwiseAlignedFixedSubject Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] PairwiseAlignedXStringSet to PairwiseAlignedFixedSubject Stefan Bentink
• 2010/08/04 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] PairwiseAlignedXStringSet to PairwiseAlignedFixedSubject Patrick Aboyoun
• 2010/08/04 Re: [Bioc-sig-seq] PairwiseAlignedXStringSet to PairwiseAlignedFixedSubject Kasper Daniel Hansen
• 2010/08/04 [Bioc-sig-seq] rtracklayer and import()ing into GRanges Ivan Gregoretti
• 2010/08/04 [Bioc-sig-seq] PairwiseAlignedXStringSet to PairwiseAlignedFixedSubject Stefan Bentink
• 2010/08/04 Re: [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Steve Lianoglou
• 2010/08/03 Re: [Bioc-sig-seq] Suggest enhancement in GRanges: add method setAs("Granges", "IntervalTree") Michael Lawrence
• 2010/08/03 Re: [Bioc-sig-seq] Suggest enhancement in GRanges: add method setAs("Granges", "IntervalTree") Steve Lianoglou
• 2010/08/03 Re: [Bioc-sig-seq] Suggest enhancement in GRanges: add method setAs("Granges", "IntervalTree") Michael Lawrence
• 2010/08/03 [Bioc-sig-seq] Suggest enhancement in GRanges: add method setAs("Granges", "IntervalTree") Steve Lianoglou
• 2010/08/03 [Bioc-sig-seq] Why are there non-imformative names() from GenomicFeatures:::exonsBy(...)? Steve Lianoglou
• 2010/07/30 [Bioc-sig-seq] Thanks for organizing BioC2010 Pratap, Abhishek
• 2010/07/27 Re: [Bioc-sig-seq] There is a bug living in Rsamtools_1.0.6:::.io_bam codepath. Martin Morgan
• 2010/07/27 [Bioc-sig-seq] There is a bug living in Rsamtools_1.0.6:::.io_bam codepath. Steve Lianoglou
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Ivan Gregoretti
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Patrick Aboyoun
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Ivan Gregoretti
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Cei Abreu-Goodger
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Patrick Aboyoun
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Ivan Gregoretti
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Patrick Aboyoun
• 2010/07/23 Re: [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Patrick Aboyoun
• 2010/07/23 [Bioc-sig-seq] Applying grep to a large number of tags. (looking for speed) Ivan Gregoretti
• 2010/07/22 [Bioc-sig-seq] Open Postdoc Positions Thomas Girke
• 2010/07/22 Re: [Bioc-sig-seq] ChIPseqR question Hervé Pagès
• 2010/07/22 [Bioc-sig-seq] ChIPseqR question Robert Morris
• 2010/07/21 Re: [Bioc-sig-seq] Coercion of GenomeData to RangedData Michael Lawrence
• 2010/07/21 [Bioc-sig-seq] Coercion of GenomeData to RangedData Dario Strbenac
• 2010/07/20 Re: [Bioc-sig-seq] using subseq() in Biostrings to insert bases Andrew Yee
• 2010/07/20 Re: [Bioc-sig-seq] using subseq() in Biostrings to insert bases Hervé Pagès
• 2010/07/20 Re: [Bioc-sig-seq] Downloading a sequence from the NCBI Ivan Gregoretti
• 2010/07/20 Re: [Bioc-sig-seq] using subseq() in Biostrings to insert bases Andrew Yee
• 2010/07/19 Re: [Bioc-sig-seq] using subseq() in Biostrings to insert bases Vincent Carey
• 2010/07/19 Re: [Bioc-sig-seq] using subseq() in Biostrings to insert bases Michael Lawrence
• 2010/07/19 [Bioc-sig-seq] using subseq() in Biostrings to insert bases Andrew Yee
• 2010/07/19 Re: [Bioc-sig-seq] Downloading a sequence from the NCBI Martin Morgan
• 2010/07/19 [Bioc-sig-seq] Downloading a sequence from the NCBI Ivan Gregoretti
• 2010/07/19 Re: [Bioc-sig-seq] matchPDict, fixed=FALSE; "walk_tb_nonfixed_subject(): implement me" Hervé Pagès
• 2010/07/19 Re: [Bioc-sig-seq] matchPDict, fixed=FALSE; "walk_tb_nonfixed_subject(): implement me" Hervé Pagès
• 2010/07/19 Re: [Bioc-sig-seq] How to convert upper case strings to lower case Joern Toedling
• 2010/07/19 Re: [Bioc-sig-seq] How to convert upper case strings to low er case xuxiang086
• 2010/07/19 Re: [Bioc-sig-seq] How to convert upper case strings to lower case Cei Abreu-Goodger
• 2010/07/19 [Bioc-sig-seq] How to convert upper case strings to lower case xuxiang086
• 2010/07/08 Re: [Bioc-sig-seq] GRanges, ordering and subsetting Martin Morgan
• 2010/07/08 Re: [Bioc-sig-seq] GRanges, ordering and subsetting Ivan Gregoretti
• 2010/07/08 Re: [Bioc-sig-seq] GRanges, ordering and subsetting Steve Lianoglou
• 2010/07/08 [Bioc-sig-seq] Equalize number reads before chipseq analysis [email protected]
• 2010/07/08 [Bioc-sig-seq] GRanges, ordering and subsetting Ivan Gregoretti
• 2010/07/07 Re: [Bioc-sig-seq] mappable length of a genome Cei Abreu-Goodger
• 2010/07/07 Re: [Bioc-sig-seq] Alignment to only 1 direction DNA strand Steve Lianoglou
• 2010/07/07 Re: [Bioc-sig-seq] mappable length of a genome Kasper Daniel Hansen
• 2010/07/07 [Bioc-sig-seq] mappable length of a genome Cei Abreu-Goodger
• 2010/07/06 Re: [Bioc-sig-seq] Bioc-sig-sequencing Digest, Vol 28, Issue 30 Kasper Daniel Hansen
• 2010/07/06 [Bioc-sig-seq] Alignment to only 1 direction DNA strand Lana Schaffer
• 2010/07/06 Re: [Bioc-sig-seq] Bioc-sig-sequencing Digest, Vol 28, Issue 30 Lana Schaffer
• 2010/07/06 Re: [Bioc-sig-seq] findOverlaps fails when querying a RangedData/RangesList against itself Michael Lawrence
• 2010/07/06 [Bioc-sig-seq] findOverlaps fails when querying a RangedData/RangesList against itself Aaron Statham
• 2010/06/29 Re: [Bioc-sig-seq] GenomicRanges: accessing coverage data in output of Views() ? Michael Lawrence
• 2010/06/29 [Bioc-sig-seq] GenomicRanges: accessing coverage data in output of Views() ? Daniela Drechsel
• 2010/06/28 Re: [Bioc-sig-seq] coverage() in IRanges Andrew Yee
• 2010/06/28 Re: [Bioc-sig-seq] coverage() in IRanges Hervé Pagès
• 2010/06/28 Re: [Bioc-sig-seq] Semantics of strandedness for gaps function Patrick Aboyoun
• 2010/06/27 [Bioc-sig-seq] Semantics of strandedness for gaps function Dario Strbenac
• 2010/06/27 Re: [Bioc-sig-seq] coverage() in IRanges Andrew Yee
• 2010/06/27 Re: [Bioc-sig-seq] Finding Mean Value of Overlapping Ranges Dario Strbenac
• 2010/06/25 Re: [Bioc-sig-seq] Finding Mean Value of Overlapping Ranges Hervé Pagès
• 2010/06/25 Re: [Bioc-sig-seq] Local Context Hervé Pagès
• 2010/06/25 Re: [Bioc-sig-seq] coverage() in IRanges Hervé Pagès
• 2010/06/25 Re: [Bioc-sig-seq] matchPDict, fixed=FALSE; "walk_tb_nonfixed_subject(): implement me" Hervé Pagès
• 2010/06/25 Re: [Bioc-sig-seq] readBamGappedAlignments() cigar error Hervé Pagès
• 2010/06/25 [Bioc-sig-seq] matchPDict, fixed=FALSE; "walk_tb_nonfixed_subject(): implement me" Ludo Pagie
• 2010/06/25 Re: [Bioc-sig-seq] coverage() in IRanges Andrew Yee
• 2010/06/25 Re: [Bioc-sig-seq] Finding Mean Value of Overlapping Ranges Dario Strbenac
• 2010/06/24 Re: [Bioc-sig-seq] Finding Mean Value of Overlapping Ranges Michael Lawrence
• 2010/06/24 [Bioc-sig-seq] Finding Mean Value of Overlapping Ranges Dario Strbenac
• 2010/06/23 Re: [Bioc-sig-seq] coverage() in IRanges Martin Morgan
• 2010/06/23 [Bioc-sig-seq] coverage() in IRanges Andrew Yee
• 2010/06/22 Re: [Bioc-sig-seq] Local Context Patrick Aboyoun
• 2010/06/21 [Bioc-sig-seq] Local Context James Bullard
• 2010/06/21 [Bioc-sig-seq] Local Context James Bullard
• 2010/06/21 Re: [Bioc-sig-seq] Accessing range values from Rle object Patrick Aboyoun
• 2010/06/21 [Bioc-sig-seq] Accessing range values from Rle object [email protected]
• 2010/06/21 Re: [Bioc-sig-seq] stringDist; hamming Patrick Aboyoun
• 2010/06/21 Re: [Bioc-sig-seq] questions on Coverage function and IRanges package Di, Xiaojun
• 2010/06/21 Re: [Bioc-sig-seq] questions on Coverage function and IRanges package Di, Xiaojun
• 2010/06/21 [Bioc-sig-seq] stringDist; hamming Ludo Pagie
• 2010/06/19 Re: [Bioc-sig-seq] Memory bottlenecks while using ShortRead Steve Lianoglou
• 2010/06/19 Re: [Bioc-sig-seq] Memory bottlenecks while using ShortRead Martin Morgan
• 2010/06/19 [Bioc-sig-seq] Memory bottlenecks while using ShortRead Cei Abreu-Goodger
• 2010/06/17 Re: [Bioc-sig-seq] questions on Coverage function and IRanges package Patrick Aboyoun
• 2010/06/14 Re: [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Michael Lawrence
• 2010/06/14 Re: [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Janet Young
• 2010/06/14 Re: [Bioc-sig-seq] Process for ChIP-seq FDR determination (followup) Michael Lawrence
• 2010/06/14 [Bioc-sig-seq] Process for ChIP-seq FDR determination (followup) [email protected]
• 2010/06/13 Re: [Bioc-sig-seq] Quality Value Analysis from a BStringSet Marcus Davy
• 2010/06/12 Re: [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Michael Lawrence
• 2010/06/12 Re: [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Patrick Aboyoun
• 2010/06/12 Re: [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Michael Lawrence
• 2010/06/12 Re: [Bioc-sig-seq] GenomicRanges findOverlaps error message Michael Lawrence
• 2010/06/12 [Bioc-sig-seq] GenomicRanges findOverlaps error message Dario Strbenac
• 2010/06/12 Re: [Bioc-sig-seq] seqselect on SimpleRleList and RangesList - bug? and request Patrick Aboyoun

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