August 2004 Archives by thread

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Starting: Sun Aug 1 06:04:43 EST 2004
Ending: Tue Aug 31 14:10:07 EST 2004
Messages: 211

• [Bioperl-l] SwissProt/UniProt GN line format changed   Hilmar Lapp
• [Bioperl-l] RNA fold   Peter Cordes
  • [Bioperl-l] RNA fold   Chris Fields
• [Bioperl-l] biosql and relationships   Sean Davis
  • [Bioperl-l] biosql and relationships   Hilmar Lapp
    • [Bioperl-l] biosql and relationships   Robson Francisco de Souza {S}
• [Bioperl-l] xml converter   Jason Stajich
• [Bioperl-l] SOS----for BioPerl Installing   Alex Zhang
  • [Bioperl-l] SOS----for BioPerl Installing   Jason Stajich
  • [Bioperl-l] SOS----for BioPerl Installing   Brian Osborne
• [Bioperl-l] TreeIO problem with nexus format   Csaba Ortutay
  • [Bioperl-l] TreeIO problem with nexus format   Jason Stajich
• [Bioperl-l] Re: [Bioperl-guts-l] [Bug 1670] PrimarySeq.pm - _guess_alphabet incorrect   Aaron J Mackey
• [Bioperl-l] on-line collaboration   Robert Citek
  • [Bioperl-l] on-line collaboration   Jason Stajich
    • [Bioperl-l] on-line collaboration   Richie Gan
    • [Bioperl-l] on-line collaboration   Robert Citek
• [Bioperl-l] PerlMol   Ivan Tubert-Brohman
• [Bioperl-l] Help with testing of parallel Smith-Waterman code on   My Trang
• [Bioperl-l] bioperl is not playing nice with DProf on aix   Mike Cariaso
  • [Bioperl-l] bioperl is not playing nice with DProf on aix   Aaron J. Mackey
    • [Bioperl-l] bioperl is not playing nice with DProf on aix   Mike Cariaso
    • [Bioperl-l] bioperl is not playing nice with DProf on aix   Mike Cariaso
      • [Bioperl-l] bioperl is not playing nice with DProf on aix   Aaron J. Mackey
      • [Bioperl-l] bioperl is not playing nice with DProf on aix   Mike Cariaso
• [Bioperl-l] orthologous genes extracting   Songmin Xie
  • [Bioperl-l] orthologous genes extracting   Albert Vilella
    • [Bioperl-l] orthologous genes extracting   Barry Moore
• [Bioperl-l] Trouble install Bioperl-Ext-1.4 & dpAlign   Michal Galdzicki
  • [Bioperl-l] Trouble install Bioperl-Ext-1.4 & dpAlign   Aaron J. Mackey
• [Bioperl-l] biosql and relationships   Hilmar Lapp
• [Bioperl-l] Secondary structure prediction   Jon Manning
• [Bioperl-l] bl2seq, Bio::AlignIO and looping through matches   rich
• [Bioperl-l] GO path and GO relationships   Law, Annie
  • [Bioperl-l] GO path and GO relationships   Jason Stajich
    • [Bioperl-l] GO path and GO relationships   Hilmar Lapp
• [Bioperl-l] Bio::SearchIO   Alberto Davila
• [Bioperl-l] Bio::SearchIO   Jason Stajich
• [Bioperl-l] Bio::Graphics::Panel->add_track problem   mql201
  • [Bioperl-l] Bio::Graphics::Panel->add_track problem   Lincoln Stein
• [Bioperl-l] Bio::Graphics::Panel->add_track problem   Crabtree, Jonathan
  • [Bioperl-l] flip Bio::Graphics::Panel   hz5 at njit.edu
    • [Bioperl-l] flip Bio::Graphics::Panel   Lincoln Stein
• [Bioperl-l] Seeking someone who likes XML for DAS2 project   Lincoln Stein
• [Bioperl-l] organism restricted blast search   Pedro Antonio Reche
  • [Bioperl-l] organism restricted blast search   Fernan Aguero
    • [Bioperl-l] organism restricted blast search   Jason Stajich
      • [Bioperl-l] organism restricted blast search   Aaron J. Mackey
      • [Bioperl-l] help converting seq objects.   Pedro Antonio Reche
      • [Bioperl-l] help converting seq objects.   Barry Moore
  • [Bioperl-l] organism restricted blast search   Paulo Almeida
• [Bioperl-l] Trees and networks: ask for features   Csaba Ortutay
• [Bioperl-l] Das version   Sean Davis
• [Bioperl-l] Bio::Graphics::Panel   Miroslava Cuperlovic-Culf
• [Bioperl-l] SeqIO fixing: detecting if a filehandle is open for writing   Peter van Heusden
  • [Bioperl-l] SeqIO fixing: detecting if a filehandle is open for writing   Hilmar Lapp
    • [Bioperl-l] SeqIO fixing: detecting if a filehandle is open for writing   Peter van Heusden
      • [Bioperl-l] SeqIO fixing: detecting if a filehandle is open for writing   Hilmar Lapp
  • [Bioperl-l] SeqIO fixing: detecting if a filehandle is open for writing   Jason Stajich
• [Bioperl-l] Bio::Graphics::Panel   Crabtree, Jonathan
• [Bioperl-l] remote access to web services   Richard Adams
• [Bioperl-l] Secondary structure prediction   Richard Adams
• [Bioperl-l] EMBOSS tools and bioperl   SRMD, Col - Underwood, Anthony
• [Bioperl-l] EMBOSS tools and bioperl   Orvis, Joshua D. (HSC)
• [Bioperl-l] EMBOSS tools and bioperl   SRMD, Col - Underwood, Anthony
• [Bioperl-l] Problems using a pers\l script to connect to GenBank   Bill Herbert
  • [Bioperl-l] Problems using a pers\l script to connect to GenBank   Jason Stajich
  • [Bioperl-l] retrieving by acc from a local multifasta file   Maria Persico
    • [Bioperl-l] retrieving by acc from a local multifasta file   Remo Sanges
    • [Bioperl-l] retrieving by acc from a local multifasta file   Paulo Almeida
    • [Bioperl-l] retrieving by acc from a local multifasta file   Barry Moore
• [Bioperl-l] Queries differ   michael watson (IAH-C)
• [Bioperl-l] identifying objects in Bio::Graphics SVG   Roels, Steven
• [Bioperl-l] identifying objects in Bio::Graphics SVG   Crabtree, Jonathan
  • [Bioperl-l] identifying objects in Bio::Graphics SVG   Todd Harris
  • [Bioperl-l] identifying objects in Bio::Graphics SVG   Todd Harris
  • [Bioperl-l] identifying objects in Bio::Graphics SVG   Lincoln Stein
• [Bioperl-l] Lining Up Glyphs on Bio::Panel   Lee Sam
• [Bioperl-l] Lining Up Glyphs on Bio::Panel   Agrin, Nathan
• [Bioperl-l] Bio::Root::IO reads URLs from -file   Allen Day
  • [Bioperl-l] Bio::Root::IO reads URLs from -file   Jason Stajich
  • [Bioperl-l] Bio::Root::IO reads URLs from -file   Ewan Birney
  • [Bioperl-l] Bio::Root::IO reads URLs from -file   Hilmar Lapp
    • [Bioperl-l] Bio::Root::IO reads URLs from -file   Peter van Heusden
      • [Bioperl-l] Bio::Root::IO reads URLs from -file   Jurgen Pletinckx
      • [Bioperl-l] Bio::Root::IO reads URLs from -file   Hilmar Lapp
      • [Bioperl-l] Bio::Root::IO reads URLs from -file   Allen Day
      • [Bioperl-l] Bio::Root::IO reads URLs from -file   Jason Stajich
      • [Bioperl-l] Bio::Root::IO reads URLs from -file   Allen Day
      • [Bioperl-l] Bio::Root::IO reads URLs from -file   Lincoln Stein
  • [Bioperl-l] Bio::Root::IO reads URLs from -file   James Thompson
• [Bioperl-l] is Bio::Graphics::Glyph::line supposed to draw description?   ben berman
  • [Bioperl-l] is Bio::Graphics::Glyph::line supposed to draw description?   Lincoln Stein
• [Bioperl-l] Problems retrieving sequences with Bio::DB::Query::GenBank   michael watson (IAH-C)
  • [Bioperl-l] Problems retrieving sequences with Bio::DB::Query::GenBank   Ewan Birney
• [Bioperl-l] Makefile.PL   QLiu at genelogic.com
  • [Bioperl-l] Makefile.PL   Hilmar Lapp
• [Bioperl-l] (no subject)   Sucheta Tripathy
  • [Bioperl-l] parsing FASTA output   Yin Yanbin
    • [Bioperl-l] parsing FASTA output   Aaron J. Mackey
• [Bioperl-l] Displaying an alignment using Bio::Graphics   Iain Wallace
  • [Bioperl-l] Displaying an alignment using Bio::Graphics   Jason Stajich
    • [Bioperl-l] Displaying an alignment using Bio::Graphics   Josh Burdick
  • [Bioperl-l] Displaying an alignment using Bio::Graphics   Lincoln Stein
    • [Bioperl-l] Displaying an alignment using Bio::Graphics   Sean Davis
• [Bioperl-l] Bio::Index sequence fetching   Sucheta Tripathy
  • [Bioperl-l] Bio::Index sequence fetching   Brian Osborne
• [Bioperl-l] How to display a Text file using web browser under CGI   Sun, Jian
• [Bioperl-l] Re: [Bioperl-guts-l] bioperl commit   Aaron J. Mackey
  • [Bioperl-l] Re: [Bioperl-guts-l] bioperl commit   Hilmar Lapp
• [Bioperl-l] Re: sequences > 4000 chars getting truncated on update on Oracle   Hilmar Lapp
• [Bioperl-l] Performance of Bio::Index methods   Mike Muratet
• [Bioperl-l] existing obo parser in perl?   Allen Day
  • [Bioperl-l] Re: [SO-devel] existing obo parser in perl?   Chris Mungall
  • [Bioperl-l] existing obo parser in perl?   Hilmar Lapp
• [Bioperl-l] I'm 'breaking' write_seq in bsml   Peter van Heusden
  • [Bioperl-l] I'm 'breaking' write_seq in bsml   Hilmar Lapp
    • [Bioperl-l] I'm 'breaking' write_seq in bsml   Peter van Heusden
• [Bioperl-l] parsing bl2seq alignment with Bio::AlignIO   rich
• [Bioperl-l] Comparing DB_FILE and SDBM   Mike Muratet
  • [Bioperl-l] Comparing DB_FILE and SDBM   Josh Lauricha
    • [Bioperl-l] Comparing DB_FILE and SDBM   Mike Muratet
      • [Bioperl-l] Comparing DB_FILE and SDBM   Jason Stajich
      • [Bioperl-l] Comparing DB_FILE and SDBM   Josh Lauricha
      • [Bioperl-l] Comparing DB_FILE and SDBM   Lincoln Stein
      • [Bioperl-l] Comparing DB_FILE and SDBM   Josh Lauricha
• [Bioperl-l] seq() method of Bio::Seq module   Jack Chen
  • [Bioperl-l] seq() method of Bio::Seq module   Allen Day
• [Bioperl-l] mega next_aln unmatch   Nathan Haigh
  • [Bioperl-l] mega next_aln unmatch   Jason Stajich
• [Bioperl-l] Bundle::Bioperl issue   Sean Davis
  • [Bioperl-l] Bundle::Bioperl issue   Chris Dagdigian
• [Bioperl-l] require/use BioPerl version 1.4   Nathan Haigh
  • [Bioperl-l] require/use BioPerl version 1.4   Jason Stajich
• [Bioperl-l] Urgent: get_Stream_by_query difficulty or problem?   Guojun Yang
• [Bioperl-l] bioperl-run install problem   Koen van der Drift
• [Bioperl-l] orthologous genes extracting   Nathan (Nat) Goodman
  • [Bioperl-l] orthologous genes extracting   Paulo Almeida
    • [Bioperl-l] orthologous genes extracting   Nathan (Nat) Goodman
      • [Bioperl-l] orthologous genes extracting   Ewan Birney
• [Bioperl-l] Re: blast2gff.pl   Lincoln Stein
  • [Bioperl-l] Re: blast2gff.pl   Jack Chen
  • [Bioperl-l] Re: blast2gff.pl   Brian Osborne
• [Bioperl-l] Re: blast2gff.pl   Lincoln Stein
• [Bioperl-l] help converting seq objects   Pedro Antonio Reche
• [Bioperl-l] Bio::Tools::IUPAC inconsistency   mql201
• [Bioperl-l] Bio::Tools::IUPAC inconsistency   Aaron J. Mackey
• [Bioperl-l] remote blast updates since BioPerl v1.4   Nathan Haigh
  • [Bioperl-l] remote blast updates since BioPerl v1.4   Jason Stajich
• [Bioperl-l] Re: Loading gff files into a MySQL database   Lincoln Stein
• [Bioperl-l] Implementing standalone Smith Waterman analysis using BioPerl interfaces.   Shachar Zehavi
  • [Bioperl-l] Implementing standalone Smith Waterman analysis using BioPerl interfaces.   Barry Moore
• [Bioperl-l] Re: [BioSQL-l] Swissprot Problems   Hilmar Lapp
• [Bioperl-l] Mapping related accession numbers   Barry Moore
  • [Bioperl-l] Mapping related accession numbers   Robson Francisco de Souza {S}
• [Bioperl-l] problem setting -find option for EMBOSS getorf   Scott Markel
  • [Bioperl-l] problem setting -find option for EMBOSS getorf   Jason Stajich
    • [Bioperl-l] ensembl modules   Yin Yanbin
      • [Bioperl-l] ensembl modules   Ewan Birney
• [Bioperl-l] Trans-Splicing Coding Sequences   James Thompson
  • [Bioperl-l] Trans-Splicing Coding Sequences   Jason Stajich
    • [Bioperl-l] Trans-Splicing Coding Sequences   James Thompson
      • [Bioperl-l] Trans-Splicing Coding Sequences   Jason Stajich
• [Bioperl-l] New glyphs in bio::graphics   Lincoln Stein
• [Bioperl-l] Bioperl Blast   Neil C. Christopher
  • [Bioperl-l] Bioperl Blast   Jason Stajich
• [Bioperl-l] Bio::Graphics : Switching Glyph Colors On One Track   Lee Sam
  • [Bioperl-l] Bio::Graphics : Switching Glyph Colors On One Track   Lincoln Stein
• [Bioperl-l] (RNAfold)Convert bracktes structure to aligned like tructure   Yousef Malik
• [Bioperl-l] (RNAfold)Convert bracktes structure to aligned like tructure   Yousef Malik
  • [Bioperl-l] (RNAfold)Convert bracktes structure to aligned like tructure   Chris Fields
• [Bioperl-l] How to change gap open penalty   Julio Fernández Banet
• [Bioperl-l] Feedback on AGAVE xml parser   Simon K. Chan
• [Bioperl-l] Bio::Tools:Sim4::Results   Miroslava Cuperlovic-Culf
  • [Bioperl-l] Bio::Tools:Sim4::Results   Jason Stajich
• [Bioperl-l] gene ontology   szhan at uoguelph.ca
  • [Bioperl-l] gene ontology   Barry Moore
• [Bioperl-l] Re: [Gmod-gbrowse] New glyphs in bio::graphics   Lincoln Stein
• [Bioperl-l] Trans-Splicing Coding Sequences   Jason Stajich
• [Bioperl-l] Bio::Tools::Run::Search proposal   Will Spooner
  • [Bioperl-l] Bio::Tools::Run::Search proposal   Steve Chervitz
• [Bioperl-l] BioPerl Bundle::BioPerl   John Legato
  • [Bioperl-l] BioPerl Bundle::BioPerl   Ewan Birney
    • [Bioperl-l] BioPerl Bundle::BioPerl   John Legato
  • [Bioperl-l] BioPerl Bundle::BioPerl   Jason Stajich
    • [Bioperl-l] BioPerl Bundle::BioPerl   Allen Day
• [Bioperl-l] locuslink - gene positions?   Fontaine, Burr R
  • [Bioperl-l] locuslink - gene positions?   Stefan Kirov
  • [Bioperl-l] locuslink - gene positions?   hz5 at njit.edu
    • [Bioperl-l] locuslink - gene positions?   Barry Moore
• [Bioperl-l] Bio::Tools::Run::Search proposal   Will Spooner
  • [Bioperl-l] Bio::Tools::Run::Search proposal   Jason Stajich
    • [Bioperl-l] Bio::Tools::Run::Search proposal   Will Spooner
• [Bioperl-l] locuslink - gene positions?   Stefan Kirov
• [Bioperl-l] Problem with T-Coffee   Jonathan Manning
  • [Bioperl-l] Problem with T-Coffee   Jason Stajich
    • [Bioperl-l] Problem with T-Coffee   Jonathan Manning
      • [Bioperl-l] Problem with T-Coffee   Jason Stajich
      • [Bioperl-l] Problem with T-Coffee   Jonathan Manning
• [Bioperl-l] phylogenetic question   Pedro Antonio Reche
• [Bioperl-l] Optimizing Bioperl db queries   Law, Annie
• [Bioperl-l] Bio::OntologyIO problems   James Mitchell
• [Bioperl-l] Possible problems with file output?   Jonathan Manning
• [Bioperl-l] back translation   Nathan Haigh
  • [Bioperl-l] back translation   Jason Stajich
• [Bioperl-l] back translation   Nathan Haigh
• [Bioperl-l] phylogenetic question   Pedro Antonio Reche
• [Bioperl-l] phylip - ProtDist Problem   Nathan Haigh
  • [Bioperl-l] phylip - ProtDist Problem   Jason Stajich
• [Bioperl-l] phylip - ProtDist Problem   Jason Stajich
• [Bioperl-l] phylip - ProtDist Problem   Jason Stajich

Last message date: Tue Aug 31 14:10:07 EST 2004
Archived on: Tue Aug 31 23:42:41 EST 2004

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