February 2007 Archives by thread

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Starting: Thu Feb 1 07:54:21 EST 2007
Ending: Wed Feb 28 23:16:38 EST 2007
Messages: 251

• [Bioperl-l] How to get from gi/ref/gb to genomic coordinates ?   Rainer Machne
  • [Bioperl-l] How to get from gi/ref/gb to genomic coordinates ?   Chris Fields
    • [Bioperl-l] How to get from gi/ref/gb to genomic coordinates ?   Chris Fields
    • [Bioperl-l] How to get from gi/ref/gb to genomic coordinates ?   Jason Stajich
• [Bioperl-l] Regarding Bioperl program   sandhya khatal
• [Bioperl-l] How to get from gi/ref/gb to genomic coordinates ?   Cui, Wenwu (NIH/NLM/NCBI) [C]
• [Bioperl-l] pdb parser   Reena Yadav
• [Bioperl-l] Fwd: Regarding Bioperl program   Jason Stajich
• [Bioperl-l] Bio::index::Fasta- where's the indexed file?   zhihua li
• [Bioperl-l] Bio::index::Fasta- where's the indexed file?   zhihua li
  • [Bioperl-l] Bio::index::Fasta- where's the indexed file?   Jason Stajich
    • [Bioperl-l] Bio::index::Fasta- where's the indexed file?   zhihua li
• [Bioperl-l] seqDiff   marian thieme
  • [Bioperl-l] seqDiff   Chris Fields
• [Bioperl-l] susp. header   marian thieme
  • [Bioperl-l] susp. header   Hilmar Lapp
• [Bioperl-l] Problem using Bio::DB::Query::GenBank;   Luba Pardo
  • [Bioperl-l] Problem using Bio::DB::Query::GenBank;   Kevin Brown
• [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Hilmar Lapp
• [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Brian Osborne
  • [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Peili Zhang
    • [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Scott Cain
• [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Scott Cain
  • [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Chris Fields
    • [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Hilmar Lapp
      • [Bioperl-l] [Gmod-schema] beginning work on SeqIO::chadoxml   Scott Cain
• [Bioperl-l] Bio::DB::SeqFeature treamtent of tags and annotations   Cook, Malcolm
• [Bioperl-l] Convert newick to nexus format   Neha Nahar
  • [Bioperl-l] Convert newick to nexus format   Jason Stajich
• [Bioperl-l] Convert newick to nexus format   Neha Nahar
• [Bioperl-l] Convert newick to nexus format   Jason Stajich
• [Bioperl-l] Convert newick to nexus format   Neha Nahar
  • [Bioperl-l] Convert newick to nexus format   Jason Stajich
    • [Bioperl-l] Convert newick to nexus format   Neha Nahar
• [Bioperl-l] RNA folding   Caroline Johnston
  • [Bioperl-l] RNA folding   Chris Fields
    • [Bioperl-l] RNA folding   Caroline Johnston
      • [Bioperl-l] RNA folding   Chris Fields
• [Bioperl-l] dbSNP   Marian Thieme
• [Bioperl-l] Bio::Tools::Glimmer   Mark Johnson
  • [Bioperl-l] Bio::Tools::Glimmer   Jason Stajich
    • [Bioperl-l] Bio::Tools::Glimmer   Torsten Seemann
    • [Bioperl-l] Bio::Tools::Glimmer   Mark Johnson
      • [Bioperl-l] Bio::Tools::Glimmer   Chris Fields
      • [Bioperl-l] Bio::Tools::Glimmer   Mark Johnson
      • [Bioperl-l] Bio::Tools::Glimmer   Torsten Seemann
      • [Bioperl-l] Bio::Tools::Glimmer   Mark Johnson
      • [Bioperl-l] Bio::Tools::Glimmer   Chris Fields
      • [Bioperl-l] Bio::Tools::Glimmer   Mark Johnson
      • [Bioperl-l] Bio::Tools::Glimmer   Chris Fields
• [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Mitch Skinner
  • [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Lincoln Stein
    • [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Mitch Skinner
  • [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Lincoln Stein
    • [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Mitch Skinner
      • [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Kevin Brown
      • [Bioperl-l] Bio::Graphics::Panel gridlines and pixels   Lincoln Stein
• [Bioperl-l] Bioperl 1.4 to 1.5.2, adding qualifiers to Bio::Seq-objects   Adam Sjøgren
  • [Bioperl-l] Bioperl 1.4 to 1.5.2, adding qualifiers to Bio::Seq-objects   Chris Fields
    • [Bioperl-l] Bioperl 1.4 to 1.5.2, adding qualifiers to Bio::Seq-objects   Adam Sjøgren
• [Bioperl-l] Bio::Restriction::Analysis cut site problem in 1.5.2   Steven Brown
  • [Bioperl-l] Bio::Restriction::Analysis cut site problem in 1.5.2   Heikki Lehvaslaiho
• [Bioperl-l] BLASTXML changes (good this time!)   Chris Fields
  • [Bioperl-l] BLASTXML changes (good this time!)   Torsten Seemann
    • [Bioperl-l] BLASTXML changes (good this time!)   Chris Fields
  • [Bioperl-l] BLASTXML changes (good this time!)   Sendu Bala
    • [Bioperl-l] BLASTXML changes (good this time!)   Chris Fields
      • [Bioperl-l] BLASTXML changes (good this time!)   Sendu Bala
      • [Bioperl-l] BLASTXML changes (good this time!)   Chris Fields
• [Bioperl-l] bioperl newbie needs help with extracting cds info   Sheri Simmons
  • [Bioperl-l] bioperl newbie needs help with extracting cds info   Kevin Brown
  • [Bioperl-l] bioperl newbie needs help with extracting cds info   Barry Moore
• [Bioperl-l] Perl script to extract from ncbi   George Heller
  • [Bioperl-l] Perl script to extract from ncbi   Cui, Wenwu (NIH/NLM/NCBI) [C]
  • [Bioperl-l] Perl script to extract from ncbi   Brian Osborne
• [Bioperl-l] WrapperBase   Caroline Johnston
  • [Bioperl-l] WrapperBase   Sendu Bala
    • [Bioperl-l] WrapperBase   Caroline Johnston
      • [Bioperl-l] WrapperBase   Sendu Bala
• [Bioperl-l] Error while parsing   George Heller
  • [Bioperl-l] Error while parsing   Chris Fields
    • [Bioperl-l] bioperl wiki changes rss / atom   Erik
      • [Bioperl-l] bioperl wiki changes rss / atom   Chris Fields
  • [Bioperl-l] Error while parsing   Steve Chervitz
• [Bioperl-l] wiki: Database error when attempting to change preferences (1054: Unknown column 'user_newpass_time')   Jay Hannah
  • [Bioperl-l] wiki: Database error when attempting to change preferences (1054: Unknown column 'user_newpass_time')   Jay Hannah
    • [Bioperl-l] wiki: Database error when attempting to change preferences (1054: Unknown column 'user_newpass_time')   Jason Stajich
      • [Bioperl-l] wiki: Database error when attempting to change preferences (1054: Unknown column 'user_newpass_time')   Chris Fields
      • [Bioperl-l] wiki: Database error when attempting to change preferences (1054: Unknown column 'user_newpass_time')   Jay Hannah
• [Bioperl-l] Getting GFF output in UCSC-specific format   Adam Diehl
  • [Bioperl-l] Getting GFF output in UCSC-specific format   Jason Stajich
• [Bioperl-l] TreeIO, how it works?   Wolverine Fran
  • [Bioperl-l] TreeIO, how (does) it work?   Jason Stajich
    • [Bioperl-l] TreeIO, how (does) it work?   Wolverine Fran
      • [Bioperl-l] TreeIO, how (does) it work?   Jason Stajich
• [Bioperl-l] subtract for Bio::RangeI.pm   Stephen Montgomery
  • [Bioperl-l] subtract for Bio::RangeI.pm   David Messina
• [Bioperl-l] subtract for Bio::RangeI.pm   Stephen Montgomery
• [Bioperl-l] number of gaps for the other sequences in an alignment   Albert Vilella
• [Bioperl-l] Bio::DB::SeqFeature::Store problem with transcripts   Sendu Bala
  • [Bioperl-l] Bio::DB::SeqFeature::Store problem with transcripts   Lincoln Stein
    • [Bioperl-l] Bio::DB::SeqFeature::Store problem with transcripts   Sendu Bala
• [Bioperl-l] update/install problem   Thomas Keller
  • [Bioperl-l] update/install problem   Chris Fields
    • [Bioperl-l] update/install problem   Sendu Bala
• [Bioperl-l] HowTo:SearchIO   Thomas J Keller
  • [Bioperl-l] HowTo:SearchIO   David Messina
  • [Bioperl-l] HowTo:SearchIO   Jason Stajich
    • [Bioperl-l] HowTo:SearchIO   Chris Fields
      • [Bioperl-l] HowTo:SearchIO   David Messina
      • [Bioperl-l] HowTo:SearchIO   Chris Fields
      • [Bioperl-l] HowTo:SearchIO   David Messina
• [Bioperl-l] Bio::Root::Utilities.pm   Steve Chervitz
  • [Bioperl-l] Bio::Root::Utilities.pm   Chris Fields
    • [Bioperl-l] Bio::Root::Utilities.pm   Steve Chervitz
      • [Bioperl-l] Bio::Root::Utilities.pm   Chris Fields
• [Bioperl-l] get the sequence of a column in a multiple alignment   Mathieu Rouard
  • [Bioperl-l] get the sequence of a column in a multiple alignment   Albert Vilella
• [Bioperl-l] DB.t failures   Sendu Bala
  • [Bioperl-l] DB.t failures   Chris Fields
  • [Bioperl-l] DB.t failures   Jay Hannah
    • [Bioperl-l] DB.t failures   Sendu Bala
      • [Bioperl-l] DB.t failures   Chris Fields
      • [Bioperl-l] DB.t failures   Chris Fields
• [Bioperl-l] DB.t failures   Sendu Bala
  • [Bioperl-l] DB.t failures   Chris Fields
    • [Bioperl-l] DB.t failures   Chris Fields
• [Bioperl-l] The axis of GC content in Bio::Graphics::glyph:dna   michael watson (IAH-C)
  • [Bioperl-l] The axis of GC content in Bio::Graphics::glyph:dna   Lincoln Stein
    • [Bioperl-l] The axis of GC content in Bio::Graphics::glyph:dna   michael watson (IAH-C)
• [Bioperl-l] Problem parsing clustalw format ni AlignIO   Catherine Letondal
  • [Bioperl-l] Problem parsing clustalw format ni AlignIO   Kevin Brown
• [Bioperl-l] XEMBL deprecation   Chris Fields
  • [Bioperl-l] XEMBL deprecation   Hilmar Lapp
    • [Bioperl-l] XEMBL deprecation   Chris Fields
      • [Bioperl-l] XEMBL deprecation   Hilmar Lapp
      • [Bioperl-l] XEMBL deprecation   Chris Fields
  • [Bioperl-l] XEMBL deprecation   Lincoln Stein
    • [Bioperl-l] XEMBL deprecation   Lincoln Stein
      • [Bioperl-l] XEMBL deprecation   Chris Fields
• [Bioperl-l] Bio::Tools::Run::Glimmer?   Mark Johnson
• [Bioperl-l] Pathway tools output parser   Jim Hu
• [Bioperl-l] Bio::DB::SeqFeature::Store problem with transcripts   Lincoln Stein
• [Bioperl-l] Bio::DB::SeqFeature::Store problem with transcripts   Lincoln Stein
  • [Bioperl-l] Bio::DB::SeqFeature::Store problem with transcripts   Sendu Bala
• [Bioperl-l] Bioperl Module OddCodes(help)   eu at otelo-online.de
  • [Bioperl-l] Bioperl Module OddCodes(help)   Torsten Seemann
• [Bioperl-l] Missing ppm for Bioperl 1.5.2_100(?)   Caitlin
  • [Bioperl-l] Missing ppm for Bioperl 1.5.2_100(?)   Sendu Bala
• [Bioperl-l] Module to draw transmembrane protein toplogoy   Tim Nugent
  • [Bioperl-l] Module to draw transmembrane protein toplogoy   Chris Fields
    • [Bioperl-l] Module to draw transmembrane protein topology   Tim Nugent
      • [Bioperl-l] Module to draw transmembrane protein topology   Chris Fields
      • [Bioperl-l] Module to draw transmembrane protein topology   Chris Fields
      • [Bioperl-l] Module to draw transmembrane protein topology   Tim Nugent
      • [Bioperl-l] Module to draw transmembrane protein topology   Chris Fields
• [Bioperl-l] t/FeatureHolder.x   Sendu Bala
  • [Bioperl-l] t/FeatureHolder.x   Chris Fields
    • [Bioperl-l] t/FeatureHolder.x   Chris Mungall
      • [Bioperl-l] t/FeatureHolder.x   Chris Fields
• [Bioperl-l] Bio::Graphics::FeatureBase seq_id question   Sendu Bala
  • [Bioperl-l] Bio::Graphics::FeatureBase seq_id question   Lincoln Stein
• [Bioperl-l] Fwd: help on remote blast   Chris Fields
• [Bioperl-l] Alignment   marian thieme
  • [Bioperl-l] Alignment   Albert Vilella
    • [Bioperl-l] Alignment   Chris Fields
    • [Bioperl-l] Alignment   Jay Hannah
      • [Bioperl-l] Alignment   Chris Fields
• [Bioperl-l] parsing a list of ids to a fasta file.   Khan, Sohail
  • [Bioperl-l] parsing a list of ids to a fasta file.   michael watson (IAH-C)
• [Bioperl-l] help on remote blast   Sanjib Kumar Gupta
• [Bioperl-l] need help in Bio-SCF   neeti somaiya
  • [Bioperl-l] need help in Bio-SCF   Sean Davis
    • [Bioperl-l] need help in Bio-SCF   Chris Fields
    • [Bioperl-l] need help in Bio-SCF   neeti somaiya
• [Bioperl-l] Adding empty member list in Bio::Cluster::SequenceFamily   Samuel GRANJEAUD - IR/IFR137
  • [Bioperl-l] Adding empty member list in Bio::Cluster::SequenceFamily   Hilmar Lapp
• [Bioperl-l] Parsing kegg files   stephen.marshall at novartis.com
  • [Bioperl-l] Parsing kegg files   Brian Osborne
• [Bioperl-l] Problem in BioPerl Installation   prateek singh yadav
  • [Bioperl-l] Problem in BioPerl Installation   Mauricio Herrera Cuadra
• [Bioperl-l] GenBank accession bug?   Chris Fields
• [Bioperl-l] bioperl-1.5.2_100 ... not found   gcardona
  • [Bioperl-l] bioperl-1.5.2_100 ... not found   Sendu Bala
• [Bioperl-l] Bio::AnnotatableI vs Bio::FeatureHolderI   Michael Kiwala
  • [Bioperl-l] Bio::AnnotatableI vs Bio::FeatureHolderI   aaron.j.mackey at gsk.com
    • [Bioperl-l] Bio::AnnotatableI vs Bio::FeatureHolderI   Chris Fields
• [Bioperl-l] Sequence matching problem!   Kurt Gobain
  • [Bioperl-l] Sequence matching problem!   Heikki Lehvaslaiho
    • [Bioperl-l] Sequence matching problem!   Albert Vilella
      • [Bioperl-l] Sequence matching problem!   James Smith
      • [Bioperl-l] Sequence matching problem!   Sendu Bala
      • [Bioperl-l] Sequence matching problem!   pierre
    • [Bioperl-l] Sequence matching problem!   Kurt Gobain
      • [Bioperl-l] Sequence matching problem!   Sendu Bala
• [Bioperl-l] GenBank accession bug?   Dave Messina
• [Bioperl-l] GenBank accession bug?   Chris Fields
• [Bioperl-l] need help urgently - needle output parsing   neeti somaiya
• [Bioperl-l] Bio::DB::SeqFeature to GFF mishandles attributes with multiple values   Cook, Malcolm
  • [Bioperl-l] Bio::DB::SeqFeature to GFF mishandles attributes withmultiple values   Cook, Malcolm
  • [Bioperl-l] Bio::DB::SeqFeature to GFF mishandles attributes with multiple values   Lincoln Stein
    • [Bioperl-l] Bio::DB::SeqFeature to GFF mishandles attributes with multiple values   Cook, Malcolm
      • [Bioperl-l] Bio::DB::SeqFeature to GFF mishandles attributes with multiple values   Lincoln Stein
• [Bioperl-l] how to change align output format   =?gb2312?B?va0gzsTi/Q==?=
• [Bioperl-l] [Fwd: Bio::Graph::SimpleGraph]   Sendu Bala
  • [Bioperl-l] [Fwd: Bio::Graph::SimpleGraph]   Sendu Bala
• [Bioperl-l] AlignIO problems   =?gb2312?B?va0gzsTi/Q==?=
  • [Bioperl-l] AlignIO problems   Chris Fields
• [Bioperl-l] problem with blast report to ncbi webpage   Cristian Gary
• [Bioperl-l] Remote blast   Sanjib Kumar Gupta
  • [Bioperl-l] Remote blast   Chris Fields
• [Bioperl-l] Reading a XML sequence (UniParc) into a BioSeq object   Samuel GRANJEAUD - IR/IFR137
• [Bioperl-l] AlignIO problems   Chris Fields
• [Bioperl-l] AlignIO problems   Chris Fields
• [Bioperl-l] Question to Bio::Tools::Run RemoteBlast   Jason Stajich
• [Bioperl-l] BioPerl leadership additions   Jason Stajich
  • [Bioperl-l] BioPerl leadership additions   Mauricio Herrera Cuadra
  • [Bioperl-l] [Bioperl-announce-l] BioPerl leadership additions   Steve Chervitz
• [Bioperl-l] parsing a list of ids to a fasta file.   Khan, Sohail
• [Bioperl-l] parsing blast results   Luba Pardo
  • [Bioperl-l] parsing blast results   Chris Fields
• [Bioperl-l] Bio::SeqIO::FTHelper   Chris Fields
• [Bioperl-l] Problem installing bioperl-1.5.2_102   Sukhinder Sandhu
  • [Bioperl-l] Problem installing bioperl-1.5.2_102   Dave Messina
• [Bioperl-l] "Command-Line Bioinformatics"   Jay Hannah
• [Bioperl-l] Bio::Factory::EMBOSS, CGI and taint   Neil Saunders
• [Bioperl-l] more on Bio::Factory::EMBOSS, CGI and taint   Neil Saunders
• [Bioperl-l] CGI taint solved   Neil Saunders
  • [Bioperl-l] CGI taint solved   Chris Fields
    • [Bioperl-l] CGI taint solved   Stefan Kirov
• [Bioperl-l] Problem of Installing Bioperl   Chan Kuang Lim
  • [Bioperl-l] Problem of Installing Bioperl   Sendu Bala
• [Bioperl-l] _rearrange   Caroline Johnston
  • [Bioperl-l] _rearrange   Chris Fields
  • [Bioperl-l] _rearrange   Sendu Bala
• [Bioperl-l] retrieven ids   Luba Pardo
  • [Bioperl-l] retrieven ids   Dave Messina
• [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Mark Johnson
  • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Dave Messina
    • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Mark Johnson
  • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Sendu Bala
  • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Chris Fields
    • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Mark Johnson
      • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Sendu Bala
      • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Chris Fields
      • [Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer   Hilmar Lapp
• [Bioperl-l] SVG output with Bio::Graphics::Panel fails   Sendu Bala
  • [Bioperl-l] SVG output with Bio::Graphics::Panel fails   Jonathan Crabtree
    • [Bioperl-l] SVG output with Bio::Graphics::Panel fails   Sendu Bala
  • [Bioperl-l] SVG output with Bio::Graphics::Panel fails   Stefan Kirov
• [Bioperl-l] Problem installing bioperl: plz reply soon. thx   Sukhinder Sandhu

Last message date: Wed Feb 28 23:16:38 EST 2007
Archived on: Wed Feb 28 23:23:33 EST 2007

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