July 2005 Archives by thread

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Starting: Fri Jul 1 06:51:50 EST 2005
Ending: Sat Jul 30 18:56:20 EST 2005
Messages: 194

• [Bioperl-l] Re: go-perl   dsam at ucsd.edu
  • [Bioperl-l] Re: go-perl   Chris Mungall
  • [Bioperl-l] Re: go-perl   Hilmar Lapp
• [Bioperl-l] why string overload is bad   Amir Karger
• [Bioperl-l] Getting nucleotide seq from protein accession   Jason Stajich
  • [Bioperl-l] Getting nucleotide seq from protein accession   Stefan Kirov
• [Bioperl-l] TreeIO::nhx doesn't write internal node labels   Jason Stajich
• [Bioperl-l] Re: A question about Bioperl module   Steve Chervitz
• [Bioperl-l] Download sequence annotations without sequence ??   SG
• [Bioperl-l] pubmed article download and storing in object   Martin Senger
• [Bioperl-l] Problem of installing bioperl-run-1.4   Yu-Hsuan Lin(???)
  • [Bioperl-l] Problem of installing bioperl-run-1.4   Jason Stajich
    • [Bioperl-l] Problem of installing bioperl-run-1.4   Yu-Hsuan Lin(???)
• [Bioperl-l] BLAST scores   michael watson (IAH-C)
• [Bioperl-l] SeqWithQuality and biosql   Marc Logghe
  • [Bioperl-l] SeqWithQuality and biosql   Heikki Lehvaslaiho
    • [Bioperl-l] SeqWithQuality and biosql   Chad Matsalla
• [Bioperl-l] Problems with Bioperl graphics   Wacki
• [Bioperl-l] [Bioperl-guts-l] a question of retrieval information   jinsun at indiana.edu
  • [Bioperl-l] [Bioperl-guts-l] a question of retrieval information   Heikki Lehvaslaiho
• [Bioperl-l] Bio::Tree::Compatible, Bio::Tree::Draw::Cladogram   Heikki Lehvaslaiho
• [Bioperl-l] bioperl-db: exporting data   Johan Viklund
  • [Bioperl-l] bioperl-db: exporting data   Hilmar Lapp
    • [Bioperl-l] bioperl-db: exporting data   Johan Viklund
• [Bioperl-l] Fwd: [Bioperl-guts-l] a question of retrieval information   Heikki Lehvaslaiho
• [Bioperl-l] Problems with Bioperl graphics   Crabtree, Jonathan
• [Bioperl-l] Re: SeqWithQuality and biosql   Hilmar Lapp
• [Bioperl-l] Re: SeqWithQuality and biosql   mark.schreiber at novartis.com
• [Bioperl-l] Re: SeqWithQuality and biosql   Hilmar Lapp
• [Bioperl-l] RE: SeqWithQuality and biosql   Richard HOLLAND
• [Bioperl-l] RE: SeqWithQuality and biosql   mark.schreiber at novartis.com
  • [Bioperl-l] RE: SeqWithQuality and biosql   Hilmar Lapp
• [Bioperl-l] Re: Bio::Tree::Compatible, Bio::Tree::Draw::Cladogram   Heikki Lehvaslaiho
• [Bioperl-l] FASTA.pm issue   sumit middha
  • [Bioperl-l] FASTA.pm issue   lehvasla at ebi.ac.uk
  • [Bioperl-l] FASTA.pm issue   khoueiry
    • [Bioperl-l] FASTA.pm issue   sumit middha
• [Bioperl-l] FASTA.pm issue   lehvasla at ebi.ac.uk
  • [Bioperl-l] FASTA.pm issue   sumit middha
• [Bioperl-l] RE: SeqWithQuality and biosql   mark.schreiber at novartis.com
• [Bioperl-l] use cases for SeqWithQuality, please   Heikki Lehvaslaiho
  • [Bioperl-l] Re: use cases for SeqWithQuality, please   Chad Matsalla
• [Bioperl-l] Overlapping Features with GFF dbase   Victor
  • [Bioperl-l] Overlapping Features with GFF dbase   Lincoln Stein
• [Bioperl-l] about features extraction from PDB files   F.Zhang
• [Bioperl-l] How to get the intron phase   Filipe Garrett
  • [Bioperl-l] How to get the intron phase   Jason Stajich
• [Bioperl-l] DEBUGGED Remoteblast from Bio::Perl through proxy   CHANDAN SINGH
• [Bioperl-l] Remote::Blast   CHANDAN SINGH
• [Bioperl-l] DEBUGGED Remoteblast from Bio::Perl through proxy..cont   CHANDAN SINGH
  • [Bioperl-l] DEBUGGED Remoteblast from Bio::Perl through proxy..cont   Jason Stajich
    • [Bioperl-l] DEBUGGED Remoteblast from Bio::Perl through proxy..cont   CHANDAN SINGH
    • [Bioperl-l] DEBUGGED Remoteblast from Bio::Perl through proxy..cont   Jason Stajich
      • [Bioperl-l] DEBUGGED Remoteblast from Bio::Perl through proxy..cont   CHANDAN SINGH
• [Bioperl-l] Advice on using bioperl   Jaqueline Ann Page
  • [Bioperl-l] Advice on using bioperl   CHANDAN SINGH
• [Bioperl-l] MSG: Replacing one sequence   Otto X. Cordero
  • [Bioperl-l] MSG: Replacing one sequence   Jason Stajich
• [Bioperl-l] Gene Features   Nathan Haigh
• [Bioperl-l] Announce: Bio::Seq::Quality   Heikki Lehvaslaiho
  • [Bioperl-l] Announce: Bio::Tree::Draw::Cladogram   Gabriel Valiente
    • [Bioperl-l] Announce: Bio::Tree::Compatible   Gabriel Valiente
  • [Bioperl-l] Announce: Bio::Seq::Quality   Heikki Lehvaslaiho
• [Bioperl-l] extract info from .game.xml   Sheldon McKay
• [Bioperl-l] bioperl-run Codeml.pm fix_blength   Albert Vilella
  • [Bioperl-l] Re: bioperl-run Codeml.pm fix_blength   Jason Stajich
    • [Bioperl-l] Re: bioperl-run Codeml.pm fix_blength   Albert Vilella
      • [Bioperl-l] Re: bioperl-run Codeml.pm fix_blength   Jason Stajich
      • [Bioperl-l] Re: bioperl-run Codeml.pm fix_blength   Albert Vilella
• [Bioperl-l] Computational and Comparative Genomics Course - July 15 Deadline   William R. Pearson
• [Bioperl-l] EMBL ID line parsing error   Heikki Lehvaslaiho
  • [Bioperl-l] EMBL ID line parsing error   Pierre Rioux
    • [Bioperl-l] EMBL ID line parsing error   Pierre Rioux
      • [Bioperl-l] EMBL ID line parsing error   Heikki Lehvaslaiho
• [Bioperl-l] Getting hit or subject length in BPlite   michael watson (IAH-C)
• [Bioperl-l] COG parsing ?   Renee Halbrook
  • [Bioperl-l] COG parsing ?   Hilmar Lapp
• [Bioperl-l] Announce: Bio::Seq::Quality   Marc Logghe
  • [Bioperl-l] Announce: Bio::Seq::Quality   Heikki Lehvaslaiho
• [Bioperl-l] Blast features added to wrong strand???   michael watson (IAH-C)
  • [Bioperl-l] Blast features added to wrong strand???   Jason Stajich
• [Bioperl-l] Blast features added to wrong strand???   michael watson (IAH-C)
• [Bioperl-l] Getting hit or subject length in BPlite   Joseph Bedell
• [Bioperl-l] Getting hit or subject length in BPlite   michael watson (IAH-C)
• [Bioperl-l] Announce: Bio::Seq::Quality   Marc Logghe
• [Bioperl-l] anyone have experience on developing parallel smith-waterman for sequence alignment?   halwani radzi
• [Bioperl-l] Bio::Graphics and primer3 pipeline   Nathan Haigh
  • [Bioperl-l] Bio::Graphics and primer3 pipeline   Rob Edwards
    • [Bioperl-l] Bio::Graphics and primer3 pipeline   Nathan Haigh
• [Bioperl-l] A question about replacing a substring using Bioperl   Gao Zhang
• [Bioperl-l] A question about replacing a substring using Bioperl   Alex Zhang
• [Bioperl-l] Re: Information regarding BioPerl Transfac module   Stefan Kirov
• [Bioperl-l] genbank2gff3.PLS and the unflatenner - Inconsistent order?   Chad Matsalla
• [Bioperl-l] GFF3 and Gbrowse   Lincoln Stein
• [Bioperl-l] [Bioperl -l] Passing argument via Command line   Iain Wallace
• [Bioperl-l] [Bioperl -l] Passing argument via Command line   Marc Logghe
• [Bioperl-l] how to work on two txt files simultaneously by handle corresponding lines from each file   Alex Zhang
  • [Bioperl-l] how to work on two txt files simultaneously by handle corresponding lines from each file   khoueiry
• [Bioperl-l] Bioperl-ext, Staden and x86_64   Andrew.Mather at dpi.vic.gov.au
  • [Bioperl-l] Bioperl-ext, Staden and x86_64   Aaron J. Mackey
• [Bioperl-l] FeatureIO::gff.pm -- error fetching sofa.definition   Tanya Gray
  • [Bioperl-l] FeatureIO::gff.pm -- error fetching sofa.definition   Scott Cain
• [Bioperl-l] Bio-perl and webpages?   Elena Grassi
  • [Bioperl-l] Bio-perl and webpages?   Paulo Almeida
    • [Bioperl-l] Bio-perl and webpages?   Jérémy JUST
      • [Bioperl-l] Bio-perl and webpages?   Paulo Almeida
• [Bioperl-l] Re: [Gmod-gbrowse] Adding human chromosomes as reference sequences   Lincoln Stein
  • [Bioperl-l] Re: [Gmod-gbrowse] Adding human chromosomes as reference sequences   Steve Taylor
  • [Bioperl-l] Re: [Gmod-gbrowse] Adding human chromosomes as reference sequences   Ilari Scheinin
• [Bioperl-l] error installing bioperl-db   Andrew Stewart
  • [Bioperl-l] error installing bioperl-db   Hilmar Lapp
• [Bioperl-l] Add a new parameters for Hmmpfam   Kary Ann Del Carmen Soriano Ocana
• [Bioperl-l] error installing bioperl-db   Hilmar Lapp
• [Bioperl-l] Re: [Gmod-gbrowse] Adding human chromosomes as reference sequences   Lincoln Stein
• [Bioperl-l] HTTP response size check in Bio::Tools::Run::RemoteBlast   Scott Markel
  • [Bioperl-l] HTTP response size check in Bio::Tools::Run::RemoteBlast   Jason Stajich
    • [Bioperl-l] HTTP response size check in Bio::Tools::Run::RemoteBlast   Guido Dieterich
    • [Bioperl-l] HTTP response size check in Bio::Tools::Run::RemoteBlast   Aaron J. Mackey
• [Bioperl-l] Blast : Bus Error   Ferdinand Marlétaz
  • [Bioperl-l] Blast : Bus Error   Laurent DOUCHY
• [Bioperl-l] Blast : Bus Error   Ferdinand Marlétaz
  • [Bioperl-l] Blast : Bus Error   Tim Erwin
• [Bioperl-l] bioperl-db: Searcing   Johan Viklund
• [Bioperl-l] Re: Bioperl-l Digest, Vol 27, Issue 8   Ping Yao
  • [Bioperl-l] Re: Bioperl-l Digest, Vol 27, Issue 8   Paulo Almeida
• [Bioperl-l] $hsp->seq_inds and axt file   Alynne Chiromatzo
  • [Bioperl-l] $hsp->seq_inds and axt file   Jason Stajich
• [Bioperl-l] PPM for bioperl-1.5?   Chris Fields
  • [Bioperl-l] PPM for bioperl-1.5?   Chris Fields
    • [Bioperl-l] PPM for bioperl-1.5?   Scott Cain
    • [Bioperl-l] PPM for bioperl-1.5?   Nathan Haigh
    • [Bioperl-l] PPM for bioperl-1.5?   Nathan Haigh
  • [Bioperl-l] PPM for bioperl-1.5?   Nathan Haigh
  • [Bioperl-l] PPM for bioperl-1.5?   Chris Fields
• [Bioperl-l] "Be forgiving in what you accept" and Bio::Tools::GuessSeqFormat   George Hartzell
  • [Bioperl-l] "Be forgiving in what you accept" and Bio::Tools::GuessSeqFormat   Brian Osborne
    • [Bioperl-l] "Be forgiving in what you accept" andBio::Tools::GuessSeqFormat   Nathan Haigh
      • [Bioperl-l] "Be forgiving in what you accept" andBio::Tools::GuessSeqFormat   George Hartzell
      • [Bioperl-l] "Be forgiving in what you accept"andBio::Tools::GuessSeqFormat   Nathan Haigh
  • [Bioperl-l] "Be forgiving in what you accept" and Bio::Tools::GuessSeqFormat   Chervitz, Steve
  • [Bioperl-l] 1.5 for Windows   Brian Osborne
  • [Bioperl-l] "Be forgiving in what you accept" and Bio::Tools::GuessSeqFormat   Brian Osborne
• [Bioperl-l] The Scriptome now has mailing lists   Amir Karger
  • [Bioperl-l] The Scriptome now has mailing lists   Victor
• [Bioperl-l] Re: Bioperl-l Digest, Vol 27, Issue 8   Marc Logghe
• [Bioperl-l] Bio::Structure::IO and single chain output   Jon Manning
• [Bioperl-l] getting patterns consensus   khoueiry
  • [Bioperl-l] getting patterns consensus   Stefan Kirov
    • [Bioperl-l] getting patterns consensus   khoueiry
      • [Bioperl-l] getting patterns consensus   Stefan Kirov
  • [Bioperl-l] getting patterns consensus   Brian Osborne
• [Bioperl-l] who, if anyone, "owns" Bio::   Rutger Vos
• [Bioperl-l] Bio::Biblio - small but important changes   Martin Senger
  • [Bioperl-l] Bio::Tools::Run::Analysis - small but important changes   Martin Senger
• [Bioperl-l] Stop him before he codes again! [almost-multiple-alignment tool?]   George Hartzell
• [Bioperl-l] Accessing database settings   Wacki
  • [Bioperl-l] Accessing database settings   Scott Cain
    • [Bioperl-l] Accessing database settings   Jason Stajich
    • [Bioperl-l] Accessing database settings   Wacki
      • [Bioperl-l] Accessing database settings   Scott Cain
• [Bioperl-l] How can I acess the alignmet score of the axt file?   Alynne Chiromatzo
  • [Bioperl-l] How can I acess the alignmet score of the axt file?   Albert Vilella
• [Bioperl-l] Stop him before he codes again![almost-multiple-alignment tool?]   Joseph Bedell
• [Bioperl-l] Bioperl-ext, Staden and x86_64   Andrew.Mather at dpi.vic.gov.au
• [Bioperl-l] getting pubmed id from genbank files   Nathan Haigh
• [Bioperl-l] getting pubmed id from genbank files   Jason Stajich
  • [Bioperl-l] getting pubmed id from genbank files   Nathan Haigh
    • [Bioperl-l] getting pubmed id from genbank files   Hilmar Lapp
• [Bioperl-l] Parsing EMBOSS::needle output   Ryan Golhar
  • [Bioperl-l] Parsing EMBOSS::needle output   Jason Stajich
• [Bioperl-l] is the Bio::Ext::Align stuff supposed to work?   George Hartzell
• [Bioperl-l] getting pubmed id from genbank files   Barry Moore
  • [Bioperl-l] getting pubmed id from genbank files   Nathan Haigh
    • [Bioperl-l] getting pubmed id from genbank files   Nathan Haigh
• [Bioperl-l] getting pubmed id from genbank files   Hilmar Lapp
• [Bioperl-l] error installing bioperl-db   Hilmar Lapp
• [Bioperl-l] getting pubmed id from genbank files   Barry Moore
• [Bioperl-l] Parsing EMBOSS::needle output   Barry Moore
• [Bioperl-l] getting pubmed id from genbank files   Hilmar Lapp
• [Bioperl-l] is the Bio::Ext::Align stuff supposed to work?   Andrew.Mather at dpi.vic.gov.au
• [Bioperl-l] app kia bar bar messeges bhajthay ho kiu koi khas bhat hai agar ho plz urdo main likho do, nt like english ok   adil iqbal
• [Bioperl-l] Fixing bioperl [was Re: [GMOD-devel] Re: [Gmod-gbrowse] Analysis features (Re: Final alpha release of gmod (chado))]   Chris Mungall
  • [Bioperl-l] Fixing bioperl [was Re: [GMOD-devel] Re: [Gmod-gbrowse] Analysis features (Re: Final alpha release of gmod (chado))]   Ewan Birney
    • [Bioperl-l] Newbie gbrowse help - script to make gff from fasta   Jim Hu
  • [Bioperl-l] Re: Fixing bioperl [was Re: [GMOD-devel] Re: [Gmod-gbrowse] Analysis features (Re: Final alpha release of gmod (chado))]   Scott Cain
    • [Bioperl-l] Re: Fixing bioperl [was Re: Analysis features]   Hilmar Lapp
  • [Bioperl-l] Re: Fixing bioperl [was Re: [GMOD-devel] Re: [Gmod-gbrowse] Analysis features (Re: Final alpha release of gmod (chado))]   Hilmar Lapp
• [Bioperl-l] Patching lucy   Phillip SanMiguel
• [Bioperl-l] constructing a tree object   Michael Bradley
  • [Bioperl-l] constructing a tree object   Jason Stajich
• [Bioperl-l] A problem about a subroutin in my code   Alex Zhang
• [Bioperl-l] Bio:: namespace question   Rutger Vos
  • [Bioperl-l] Bio:: namespace question   Jason Stajich
    • [Bioperl-l] Bio:: namespace question   Hilmar Lapp

Last message date: Sat Jul 30 18:56:20 EST 2005
Archived on: Sun Jul 31 13:13:57 EST 2005

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