November 2003 Archives by thread

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Starting: Sun Nov 2 21:52:37 EST 2003
Ending: Sun Nov 30 17:51:05 EST 2003
Messages: 259

• [Bioperl-l] Restriction Enzyme cuts on Circular plasmids   pblaiklo at 110.net
• [Bioperl-l] OMIM tests failing   Hilmar Lapp
  • [Bioperl-l] OMIM tests failing   Juguang Xiao
    • [Bioperl-l] OMIM tests failing   Hilmar Lapp
• [Bioperl-l] how to tun bioperl and parsing blast report   hank wong
  • [Bioperl-l] how to tun bioperl and parsing blast report   Brian Osborne
• [Bioperl-l] how to set first line of genbank file   Magic Fang
  • [Bioperl-l] how to set first line of genbank file   Jason Stajich
    • [Bioperl-l] how to set first line of genbank file   Hilmar Lapp
• [Bioperl-l] help with BLAST   Crook, R.
  • [Bioperl-l] help with BLAST   Remo Sanges
• [Bioperl-l] Glimmer   michael watson (IAH-C)
  • [Bioperl-l] Glimmer   Jason Stajich
• [Bioperl-l] Glimmer   michael watson (IAH-C)
  • [Bioperl-l] Glimmer   Jason Stajich
• [Bioperl-l] Help with testing of parallel Smith-Waterman code on x86 workstations   Iain Wallace
• [Bioperl-l] RPSblast and existing BLAST packages (WAS: RemoteBlast)   Donald G. Jackson
• [Bioperl-l] bioperl and Bio::Factory::EMBOSS via cgi... permission problems?   Tobias
  • [Bioperl-l] bioperl and Bio::Factory::EMBOSS via cgi... permissionproblems?   Brian Osborne
    • [Bioperl-l] bioperl and Bio::Factory::EMBOSS via cgi...permissionproblems?   Tobias
  • [Bioperl-l] bioperl and Bio::Factory::EMBOSS via cgi... permission problems?   Rob Edwards
• [Bioperl-l] gcg.pm, another comment   Derek Gatherer
• [Bioperl-l] Bio::SeqIO::tigr   Jason Stajich
  • [Bioperl-l] Bio::SeqIO::tigr   Aaron J.Mackey
    • [Bioperl-l] Bio::SeqIO::tigr   Josh Lauricha
  • [Bioperl-l] Bio::SeqIO::tigr   Josh Lauricha
    • [Bioperl-l] Bio::SeqIO::tigr   Jason Stajich
• [Bioperl-l] (no subject)   Nokes, Rebecca (BearingPoint)
  • [Bioperl-l] (no subject)   Brian Osborne
• [Bioperl-l] problems with Bio::Tools::GFF   Scott Cain
  • [Bioperl-l] Re: problems with Bio::Tools::GFF   Jason Stajich
    • [Bioperl-l] Re: problems with Bio::Tools::GFF   Scott Cain
      • [Bioperl-l] Re: problems with Bio::Tools::GFF   Jason Stajich
      • [Bioperl-l] Re: problems with Bio::Tools::GFF   Lincoln Stein
  • [Bioperl-l] problems with Bio::Tools::GFF   Lincoln Stein
• [Bioperl-l] SeqFeatureI->spliced_translation   Matthew Betts
• [Bioperl-l] get_sequence error retrieving protein sequences from GenBank   Warren Alden Kibbe
  • [Bioperl-l] get_sequence error retrieving protein sequences from GenBank   Jason Stajich
• [Bioperl-l] Bio::Tools::Run::Alignment::Clustalw   Josh Lauricha
  • [Bioperl-l] Bio::Tools::Run::Alignment::Clustalw   Josh Lauricha
• [Bioperl-l] Understanding LocatableSeq   Wes Barris
  • [Bioperl-l] Understanding LocatableSeq   Ewan Birney
    • [Bioperl-l] Understanding LocatableSeq   Wes Barris
      • [Bioperl-l] Understanding LocatableSeq   Jason Stajich
      • [Bioperl-l] Understanding LocatableSeq   Wes Barris
      • [Bioperl-l] Understanding LocatableSeq   Heikki Lehvaslaiho
      • [Bioperl-l] Understanding LocatableSeq   Ewan Birney
• [Bioperl-l] post translational modifications   Koen van der Drift
  • [Bioperl-l] post translational modifications   Jason Stajich
• [Bioperl-l] RPSblast and existing BLAST packages (WAS: RemoteBlast)   Richard Adams
  • [Bioperl-l] RPSblast and existing BLAST packages (WAS: RemoteBlast)   Will Spooner
    • [Bioperl-l] RPSblast and existing BLAST packages (WAS: RemoteBlast)   Richard Adams
• [Bioperl-l] RepeatMasker   Crook, R.
• [Bioperl-l] gbrowse: creating link based on 'Note' feature   Charles Hauser
• [Bioperl-l] RE: [Gmod-gbrowse] gbrowse: creating link based on 'Note' feature   Marc Logghe
• [Bioperl-l] Bio::AlignIO::bl2seq doesn't know when to stop...   Jonathan M. Manning
  • [Bioperl-l] Bio::AlignIO::bl2seq doesn't know when to stop...   Jonathan Manning
• [Bioperl-l] Bio::Tools::FootPrinter   ypeng at sfu.ca
  • [Bioperl-l] Bio::Tools::FootPrinter   Shawn Hoon
• [Bioperl-l] Bio::Graphics::Feature   Jason Stajich
  • [Bioperl-l] Bio::Graphics::Feature   Lincoln Stein
• [Bioperl-l] haplotype   Pedro
  • [Bioperl-l] haplotype   Ewan Birney
• [Bioperl-l] Concatenating Bacterial Genome Sequence   michael watson (IAH-C)
• Fwd: Re: [Bioperl-l] haplotype   Pedro
  • Fwd: Re: [Bioperl-l] haplotype   Jason Stajich
• [Bioperl-l] Concatenating Bacterial Genome Sequence   Lin, Xiaoying
• [Bioperl-l] Enabling SVG output from Bio::Graphics   Todd Harris
• [Bioperl-l] BioSQL   matthieu CONTE
• [Bioperl-l] embl.pm and virus names   Neil Rawlings
  • [Bioperl-l] embl.pm and virus names   Heikki Lehvaslaiho
• [Bioperl-l] Re: [BioSQL-l] (no subject)   Hilmar Lapp
• [Bioperl-l] macperl   Liam Elbourne
  • [Bioperl-l] macperl   Hilmar Lapp
  • [Bioperl-l] macperl   Todd Richmond
• [Bioperl-l] psl to gff?   Wes Barris
  • [Bioperl-l] psl to gff?   Jason Stajich
• [Bioperl-l] suggestion for drawing pedigrees   Lowell Umayam
  • [Bioperl-l] suggestion for drawing pedigrees   Jason Stajich
• [Bioperl-l] load_gff3 handles ##sequence-region   Allen Day
  • [Bioperl-l] Re: [Gmod-schema] load_gff3 handles ##sequence-region   Scott Cain
• [Bioperl-l] How to check the validity of an accession number ?   Damien Marsic
  • [Bioperl-l] How to check the validity of an accession number ?   Heikki Lehvaslaiho
    • [BioPerl] Re: [Bioperl-l] How to check the validity of an accession number ?   Mark Wilkinson
      • [BioPerl] Re: [Bioperl-l] How to check the validity of an accession number ?   Heikki Lehvaslaiho
      • [BioPerl] Re: [Bioperl-l] How to check the validity of an accession number ?   Mark Wilkinson
      • [BioPerl] Re: [Bioperl-l] How to check the validity of an accession number ?   Jason Stajich
    • [Bioperl-l] How to check the validity of an accession number ?   Damien Marsic
      • [Bioperl-l] How to check the validity of an accession number ?   Damien Marsic
      • [Bioperl-l] How to check the validity of an accession number ?   Heikki Lehvaslaiho
• [Bioperl-l] (no subject)   Sanjib Dutta
• [Bioperl-l] bioperl meme/mast parser?   Alok Saldanha
  • [Bioperl-l] bioperl meme/mast parser?   Stefan A Kirov
• [Bioperl-l] Score computation in psl.pm   Wes Barris
• [Bioperl-l] Re: SeqFeatureI::display_name   Hilmar Lapp
• [Bioperl-l] about the FgeneSH parser   Magic Fang
  • [Bioperl-l] about the FgeneSH parser   Heikki Lehvaslaiho
    • [Bioperl-l] about the FgeneSH parser   Magic Fang
    • [Bioperl-l] about the FgeneSH parser   Todd Harris
      • [Bioperl-l] about the FgeneSH parser   Magic Fang
• [Bioperl-l] How to check the validity of an accession number ?   michael watson (IAH-C)
• [Bioperl-l] SeqWords.pm   Derek Gatherer
  • [Bioperl-l] SeqWords.pm   Heikki Lehvaslaiho
    • [Bioperl-l] Codeml.pm/PAML.pm   Derek Gatherer
• [Bioperl-l] Bio::Tools::Run::Phylo::PAML::Codeml   Derek Gatherer
  • [Bioperl-l] Bio::Tools::Run::Phylo::PAML::Codeml   Heikki Lehvaslaiho
  • [Bioperl-l] Bio::Tools::Run::Phylo::PAML::Codeml   Jason Stajich
• [Bioperl-l] Re: [Bioperl-guts-l] bioperl-live SeqFeature test hanging   Heikki Lehvaslaiho
• [Bioperl-l] SiteMatrix   Heikki Lehvaslaiho
• [Bioperl-l] SiteMatrix   Stefan Kirov
• [Bioperl-l] Re: SiteMatrix   Stefan Kirov
• [Bioperl-l] which GD.pm for libgd1.so.1.8.4   Charles Hauser
  • [Bioperl-l] which GD.pm for libgd1.so.1.8.4   Lincoln Stein
• [Bioperl-l] about the GD problem   Magic Fang
  • [Bioperl-l] about the GD problem   Lincoln Stein
• [Bioperl-l] passing $result   Joshua A Udall
  • [Bioperl-l] passing $result   Andreas Kahari
  • [Bioperl-l] passing $result   Jason Stajich
• [Bioperl-l] Drawing Chromosomes   Johnny Amos
  • [Bioperl-l] Drawing Chromosomes   Lincoln Stein
• [Bioperl-l] Join Our Studies! Current Study (Molecular Testing Professionals)   Pat Jones
• [Bioperl-l] Bio::Tools::Run::StandAloneBlast   Mehta, Perdeep
  • [Bioperl-l] Bio::Tools::Run::StandAloneBlast   Jason Stajich
• [Bioperl-l] Bio::Tools::Run::StandAloneBlast   Mehta, Perdeep
  • [Bioperl-l] Bio::Tools::Run::StandAloneBlast   Wes Barris
• [Bioperl-l] tests failing, please help   Heikki Lehvaslaiho
  • [Bioperl-l] tests failing, please help   Brian Osborne
  • [Bioperl-l] tests failing, please help   Lincoln Stein
• [Bioperl-l] Bio::Tools::Run::StandAloneBlast   Mehta, Perdeep
  • [Bioperl-l] Bio::Tools::Run::StandAloneBlast   Jason Stajich
• [Bioperl-l] xyplot weirdness   Tobias
  • [Bioperl-l] xyplot weirdness   Lincoln Stein
• [Bioperl-l] Bio::AlignIO::po   Matthew Betts
  • [Bioperl-l] Bio::AlignIO::po   Jason Stajich
• [Bioperl-l] SeqFeature test   Stefan Kirov
• [Bioperl-l] tests failing, please help   Stefan Kirov
• [Bioperl-l] new to the group. And a quick demo of SVG::GD   Ronan Oger
  • [Bioperl-l] new to the group. And a quick demo of SVG::GD   Lincoln Stein
  • [Bioperl-l] new to the group. And a quick demo of SVG::GD   Todd Harris
    • [Bioperl-l] new to the group. And a quick demo of SVG::GD   Ronan Oger
      • [Bioperl-l] GD/SVG (was: new to the group)   Todd Harris
      • [Bioperl-l] GD/SVG (was: new to the group)   Ronan Oger
• [Bioperl-l] standaloneblast executable location?   Wes Barris
  • [Bioperl-l] standaloneblast executable location?   Jason Stajich
• [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Zayed Albertyn
  • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Andreas Kahari
    • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Zayed Albertyn
    • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Zayed Albertyn
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Andreas Kahari
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Zayed Albertyn
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Andreas Kahari
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Zayed Albertyn
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Jason Stajich
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Brian Osborne
      • [Bioperl-l] Problem with Bio::SeqIO opening gzipped files   Jason Stajich
      • [Bioperl-l] Problem or Bug with Bio::   hyupaik at indiana.edu
      • [Bioperl-l] Problem or Bug with Bio::   Jason Stajich
      • [Bioperl-l] Problem or Bug with Bio::LocatableSeq   hyupaik at indiana.edu
• [Bioperl-l] new HOWTO: SimpleWebAnalysis   Heikki Lehvaslaiho
• [Bioperl-l] PCR   Vesko Baev
  • [Bioperl-l] PCR   Heikki Lehvaslaiho
  • [Bioperl-l] PCR   Rob Edwards
• [Bioperl-l] Blast   Guido Dieterich
• [Bioperl-l] Graphics:Panel /SeqFeature::Generic   Daniel Lang
  • [Bioperl-l] Graphics:Panel /SeqFeature::Generic   Lincoln Stein
    • [Bioperl-l] Graphics:Panel /SeqFeature::Generic   Daniel Lang
    • [Bioperl-l] Graphics:Panel /SeqFeature::Generic   Daniel Lang
• [Bioperl-l] location of non-bioperl code in the Bio:: tree   Reece Hart
• [Bioperl-l] RE: about pdb parsing   Jurgen Pletinckx
  • [Bioperl-l] RE: about pdb parsing   Jurgen Pletinckx
• [Bioperl-l] Drawing chromosomes in Generic Genome Browser   Gaetan
  • [Bioperl-l] Drawing chromosomes in Generic Genome Browser   Lincoln Stein
• [Bioperl-l] need help with biopipe   matthieu CONTE
  • [Bioperl-l] Re: [Bioperl-pipeline] need help with biopipe   Shawn Hoon
    • [Bioperl-l] Bio::Tools::Phylo::Phylip::ProtDist module: warning message for bootstrapped data file   Jack Chen
• [Bioperl-l] Drawing Chromosomes   Gaetan
  • [Bioperl-l] Drawing Chromosomes   Lincoln Stein
• [Bioperl-l] usage of Bio::SeqIO::tigr   Yue Ke
• [Bioperl-l] usage of Bio::SeqIO::tigr   Yue Ke
• [Bioperl-l] (no subject)   Yue Ke
• [Bioperl-l] usage of Bio::SeqIO::tigr   Yue Ke
  • [Bioperl-l] usage of Bio::SeqIO::tigr   Jason Stajich
    • [Bioperl-l] usage of Bio::SeqIO::tigr   Josh Lauricha
• [Bioperl-l] proposed additions to SeqFeatureI, RangeI and FeatureHolderI   Chris Mungall
  • [Bioperl-l] proposed additions to SeqFeatureI, RangeI and FeatureHolderI   Lincoln Stein
• [Bioperl-l] Blast   Richard Adams
• [Bioperl-l] Newbie question: Removing sequences from alignment   Iain Wallace
  • [Bioperl-l] Newbie question: Removing sequences from alignment   Brian Osborne
• [Bioperl-l] Capabilities of Bio::Tree   Bryony Mackenzie
  • [Bioperl-l] Capabilities of Bio::Tree   Jason Stajich
• [Bioperl-l] Total OBF server shutdown Saturday November 22nd (all day EDT timezone)   Chris Dagdigian
• [Bioperl-l] AcePerl Makefile problem w perl 5.8.0   Philip MacMenamin
• [Bioperl-l] Searching the bioperl archive   Andy Hammer
  • [Bioperl-l] Searching the bioperl archive   Jason Stajich
• [Bioperl-l] Re: bioperl Registry   Lincoln Stein
  • [Bioperl-l] Re: bioperl Registry   Heikki Lehvaslaiho
    • [Bioperl-l] Re: bioperl Registry   Lincoln Stein
      • [Bioperl-l] Re: bioperl Registry   Heikki Lehvaslaiho
      • [Bioperl-l] Re: bioperl Registry   Lincoln Stein
      • [Bioperl-l] Re: bioperl Registry   Heikki Lehvaslaiho
• [Bioperl-l] GFF file output missing semicolon   Wes Barris
  • [Bioperl-l] GFF file output missing semicolon   Lincoln Stein
    • [Bioperl-l] GFF file output missing semicolon   Jason Stajich
      • [Bioperl-l] GFF file output missing semicolon   Wes Barris
    • [Bioperl-l] GFF file output missing semicolon   Wes Barris
• [Bioperl-l] MS: Calculation of theoretical spectra   Andreas Boehm
  • [Bioperl-l] MS: Calculation of theoretical spectra   Jonathan Epstein
• [Bioperl-l] [Bioperl-] Alignment Score for ClustalW using the factory   Iain Wallace
• [Bioperl-l] Still working with biopipe....   matthieu CONTE
• [Bioperl-l] Bioperl Developer snapshot 1.3.03   Heikki Lehvaslaiho
  • [Bioperl-l] Re: [Bioperl-announce-l] Bioperl Developer snapshot 1.3.03   Steve Chervitz
• [Bioperl-l] How can i get tag Comments from Genbank file   Fabiola Sánchez
  • [Bioperl-l] How can i get tag Comments from Genbank file   Jason Stajich
• [Bioperl-l] How to distinguish pdb Helix from Sheet?   Jeff Donner
  • [Bioperl-l] How to distinguish pdb Helix from Sheet?   Jason Stajich
• [Bioperl-l] STDERR?   Vesko Baev
  • [Bioperl-l] STDERR?   Wes Barris
• [Bioperl-l] Developers: what do you want to fix before 1.4 release?   Heikki Lehvaslaiho
  • [Bioperl-l] Developers: what do you want to fix before 1.4 release?   Jason Stajich
    • [Bioperl-l] Developers: what do you want to fix before 1.4 release?   Steve Chervitz
      • [Bioperl-l] Developers: what do you want to fix before 1.4 release?   Heikki Lehvaslaiho
      • [Bioperl-l] Developers: what do you want to fix before 1.4 release?   Jason Stajich
      • [Bioperl-l] Developers: what do you want to fix before 1.4 release?   Heikki Lehvaslaiho
• [Bioperl-l] Problems with SearchIO and SearchIO::HTMLResultwriter   michael watson (IAH-C)
  • [Bioperl-l] Problems with SearchIO and SearchIO::HTMLResultwriter   Jason Stajich
• [Bioperl-l] Problems with SearchIO and SearchIO::HTMLResultwr iter   michael watson (IAH-C)
• [Bioperl-l] Re: Developers: what do you want to fix before 1.4 release?   Todd Harris
  • [Bioperl-l] Re: Developers: what do you want to fix before 1.4 release?   Heikki Lehvaslaiho
    • [Bioperl-l] Re: Developers: what do you want to fix before 1.4 release?   Stefan Kirov
• [Bioperl-l] why i can not find Bio::SeqIO::staden::read in bioperl-ext packages   Magic Fang
  • [Bioperl-l] why i can not find Bio::SeqIO::staden::read in bioperl-ext packages   Jason Stajich
• [Bioperl-l] Bio::Perl blast function not working?   Mark Wilkinson
  • [Bioperl-l] Bio::Perl blast function not working?   Jason Stajich
    • [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working?   Mark Wilkinson
      • [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working?   Rob Edwards
      • [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working?   Jason Stajich
      • [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working?   Mark Wilkinson
      • [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working?   Heikki Lehvaslaiho
      • [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working?   Mark Wilkinson
• [BioPerl] Re: [Bioperl-l] Bio::Perl blast function not working   paul.boutros at utoronto.ca
• [Bioperl-l] Bio::Restriction issues   Heikki Lehvaslaiho
• [Bioperl-l] AUTHORS reference field in genbank file?   Wes Barris
  • [Bioperl-l] AUTHORS reference field in genbank file?   Jason Stajich
  • [Bioperl-l] AUTHORS reference field in genbank file?   Joshua A Udall
• [Bioperl-l] about the Bio::SeqIO::staden::read   Magic Fang
• [Bioperl-l] Bio::SeqIO Genbank + EMBL unquoted values   Nadeem Faruque
  • [Bioperl-l] Bio::SeqIO Genbank + EMBL unquoted values   Heikki Lehvaslaiho
• [Bioperl-l] newick to nexus   Lewis Lukens
  • [Bioperl-l] newick to nexus   Rob Edwards
  • [Bioperl-l] newick to nexus   Shawn Hoon
  • [Bioperl-l] newick to nexus   Jason Stajich
• [Bioperl-l] CONGRATULATIONS YOU HAVE WON   Lotto International
• [Bioperl-l] ProServer, a pluggable DAS server, Bio::SeqIO support added   Andreas Kahari
• [Bioperl-l] Re: Small Bio::Factory::EMBOSS typo   Heikki Lehvaslaiho
• [Bioperl-l] R E S U M E   E l e c t r i c i a n
• [Bioperl-l] R E S U M E   E l e c t r i c i a n
• [Bioperl-l] Mobiform SVG Browser and SVGViewPlus for .NET   info at mobiform.com
• [Bioperl-l] Sending Resume   Engineer - Mgr
• [Bioperl-l] Sending Resume   Engineer - Mgr

Last message date: Sun Nov 30 17:51:05 EST 2003
Archived on: Sun Nov 30 21:01:25 EST 2003

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• More info on this list...