December 2004 Archives by thread

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Starting: Wed Dec 1 01:11:04 EST 2004
Ending: Thu Dec 30 12:32:37 EST 2004
Messages: 231

• [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Hilmar Lapp
• [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Hilmar Lapp
  • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Nathan Haigh
• [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Hilmar Lapp
  • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Nathan Haigh
    • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Brian Osborne
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Nathan Haigh
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Brian Osborne
      • [Bioperl-l] Discovering new genes   Affan Qureshi
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Nathan Haigh
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Nathan Haigh
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Hilmar Lapp
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Nathan Haigh
      • [Bioperl-l] Bioperl platforms and XML parser   Hilmar Lapp
      • [Bioperl-l] AnnotationCollectionI and SeqFeatureI changes   Hilmar Lapp
• [Bioperl-l] bad entries in interpro again   Mikko Arvas
  • [Bioperl-l] Re: bad entries in interpro again   Hilmar Lapp
    • [Bioperl-l] Re: bad entries in interpro again   Mikko Arvas
      • [Bioperl-l] Re: bad entries in interpro again   Dave Howorth
      • [Bioperl-l] Re: bad entries in interpro again   Hilmar Lapp
      • [Bioperl-l] Re: bad entries in interpro again   Hilmar Lapp
• [Bioperl-l] bio{perl,python,ruby} comparison   Gabriel Horner
• [Bioperl-l] writing gff - what's the minumum set of objects?   Matsalla, Chad
  • [Bioperl-l] writing gff - what's the minumum set of objects?   Sean Davis
• [Bioperl-l] SeqIO::refseq   ybcho
• [Bioperl-l] Blast graphic and image map?   Smithies, Russell
• [Bioperl-l] bioperl article/report   Gabriel Horner
• [Bioperl-l] Module for secondary structure feature recognition ?   Goel, Manisha
  • [Bioperl-l] Module for secondary structure feature recognition ?   Ed Green
• [Bioperl-l] NCBI/Swissprot cross-ref   Fontaine, Burr R
  • [Bioperl-l] NCBI/Swissprot cross-ref   Sean Davis
  • [Bioperl-l] NCBI/Swissprot cross-ref   Ewan Birney
• [Bioperl-l] NCBI/Whitehead cross-ref   Vishal Seri
• [Bioperl-l] SeqIO::genbank.pm error.   ybcho
• [Bioperl-l] Given a protein sequence (and its Genbank accession number), how to get the accession number of corresponding mRNA sequence?   Wuming Gong
  • [Bioperl-l] Re: Given a protein sequence (and its Genbank accession number), how to get the accession number of corresponding mRNA sequence?   Wuming Gong
• [Bioperl-l] New item for Briefings in bioinformatics?   Eitan Rubin
  • [Bioperl-l] New item for Briefings in bioinformatics?   Affan Qureshi
  • [Bioperl-l] New item for Briefings in bioinformatics?   Aaron J. Mackey
    • [Bioperl-l] New item for Briefings in bioinformatics?   Allen Day
• [Bioperl-l] problems parsing EBI interposscan.xml   Mariano Latorre A
  • [Bioperl-l] problems parsing EBI interposscan.xml   Hilmar Lapp
    • [Bioperl-l] problems parsing EBI interposscan.xml   Robson Francisco de Souza {S}
      • [Bioperl-l] problems parsing EBI interposscan.xml   Hilmar Lapp
      • [Bioperl-l] problems parsing EBI interposscan.xml   Allen Day
• [Bioperl-l] SWAT Implementation   denise dolan
  • [Bioperl-l] SWAT Implementation   Aaron J. Mackey
• [Bioperl-l] Re: Given a protein sequence (and its Genbank accession number)   Barry Moore
• [Bioperl-l] New item for Briefings in bioinformatics?   Stefan Kirov
• [Bioperl-l] Simple question on reading a .msf file   Terry Jones
  • [Bioperl-l] Simple question on reading a .msf file   Brian Osborne
    • [Bioperl-l] Simple question on reading a .msf file   Terry Jones
      • [Bioperl-l] Simple question on reading a .msf file   Brian Osborne
      • [Bioperl-l] Simple question on reading a .msf file   Terry Jones
• [Bioperl-l] How to retrieve/parse RefSeq contig entries with Bio::DB::Query::GenBank?   Rumen Kostadinov
  • [Bioperl-l] How to retrieve/parse RefSeq contig entries with Bio::DB::Query::GenBank?   Jason Stajich
• [Bioperl-l] How to retrieve/parse RefSeq contig entries with Bio::DB::Query::GenBank?   Jason Stajich
• [Bioperl-l] Remote Blast error - 500 Too many open files   Stefan Wächter
• [Bioperl-l] Bio::SearchIO::psiblast   Liliana Davalos
  • [Bioperl-l] Bio::SearchIO::psiblast   Jason Stajich
• [Bioperl-l] Fw: bad entries in interpro again (fwd)   Jared Fox
  • [Bioperl-l] Fw: bad entries in interpro again (fwd)   Heikki Lehvaslaiho
    • [Bioperl-l] Fw: bad entries in interpro again (fwd)   Allen Day
• [Bioperl-l] Fwd: [Root-l] install error of bioperl   Jason Stajich
  • [Bioperl-l] Fwd: [Root-l] install error of bioperl   Nathan Haigh
  • [Bioperl-l] Fwd: [Root-l] install error of bioperl   Nathan Haigh
  • [Bioperl-l] Fwd: [Root-l] install error of bioperl   Barry Moore
  • [Bioperl-l] Installing BioPerl on Windows   Barry Moore
    • [Bioperl-l] Installing BioPerl on Windows   Brian Osborne
      • [Bioperl-l] Installing BioPerl on Windows   Scott Markel
      • [Bioperl-l] Installing BioPerl on Windows   Nathan Haigh
• [Bioperl-l] New item for Briefings in bioinformatics?   Scott Cain
• [Bioperl-l] [Fwd: Re: bad entries in interpro again]   Emmanuel Quevillon
• [Bioperl-l] (no subject)   Mikko Arvas
  • [Bioperl-l] Re: bad interpro entries   Dave Howorth
• [Bioperl-l] empty POD documentation sections   Heikki Lehvaslaiho
• [Bioperl-l] Can I get different Graphics::Panel colours for different HSP frames within the same blast hit?   Marcus Claesson
• [Bioperl-l] Installing Bioperl on Windows   Barry Moore
  • [Bioperl-l] Installing Bioperl on Windows   Nathan Haigh
    • [Bioperl-l] Installing Bioperl on Windows   Barry Moore
  • [Bioperl-l] Mostly used Bioperl modules   Edward WIJAYA
• [Bioperl-l] installing HTML::Parser   X
  • [Bioperl-l] installing HTML::Parser   Paulo Almeida
    • [Bioperl-l] installing HTML::Parser   Xiaodong
      • [Bioperl-l] installing HTML::Parser   Barry Moore
  • [Bioperl-l] installing HTML::Parser   Nathan Haigh
  • [Bioperl-l] installing HTML::Parser   Nathan Haigh
• [Bioperl-l] Can I get different Graphics::Panel colours fordifferent HSP frames within the same blast hit?   Crabtree, Jonathan
  • [Bioperl-l] Can I get different Graphics::Panel colours fordifferent HSP frames within the same blast hit?   Aaron J. Mackey
• [Bioperl-l] Can I get different Graphics::Panel colours fordifferent HSP frames within the same blast hit?   Crabtree, Jonathan
  • [Bioperl-l] Can I get different Graphics::Panel colours fordifferent HSP frames within the same blast hit?   Aaron J. Mackey
  • [Bioperl-l] Can I get different Graphics::Panel colours fordifferent HSP frames within the same blast hit?   Marcus Claesson
• [Bioperl-l] Can I get different Graphics::Panel coloursfordifferent HSP frames within the same blast hit?   Crabtree, Jonathan
  • [Bioperl-l] Can I get different Graphics::Panel coloursfordifferent HSP frames within the same blast hit?   Jason Stajich
• [Bioperl-l] Can I get different Graphics::Panel coloursfordifferent HSP frames within the same blast hit?   Crabtree, Jonathan
  • [Bioperl-l] Can I get different Graphics::Panel coloursfordifferent HSP frames within the same blast hit?   Jason Stajich
  • [Bioperl-l] Can I get different Graphics::Panel coloursfordifferent HSP frames within the same blast hit?   Marcus Claesson
• [Bioperl-l] Extracting Raw Score Value from Blast Output   Waibhav Tembe
• [Bioperl-l] Re: Extracting Raw Score Value from Blast Output   Jason Stajich
• [Bioperl-l] tigr.pm   matthieu CONTE
• [Bioperl-l] Fuzzy Pattern Matching Algorithm   demerphq
  • [Bioperl-l] Fuzzy Pattern Matching Algorithm   Aaron J. Mackey
• [Bioperl-l] Re: [Bioperl-guts-l] [Bug 1720] New: Bug in Bio::SeqFeature::Generic.pm DESTROY causes object corruption.. fix included!   Aaron J. Mackey
• [Bioperl-l] Bio::tools::primer3 and bio::seqfeature::primer   Sean Davis
  • [Bioperl-l] Bio::tools::primer3 and bio::seqfeature::primer   Rob Edwards
• [Bioperl-l] Re: [Bioperl-guts-l] [Bug 1720] New: Bug in Bio::SeqFeature::Generic.pm DESTROY causes object corruption.. fix included!   Aaron J. Mackey
  • [Bioperl-l] SeqFeature::Generic DESTROY [was New: Bug in Bio::SeqFeature::Generic.pm DESTROY causes object corruption.. fix included!]   Jason Stajich
• [Bioperl-l] Re: [BioSQL-l] tigr.pm   Hilmar Lapp
  • [Bioperl-l] Re: [BioSQL-l] tigr.pm   Josh Lauricha Hi
  • [Bioperl-l] Re: [BioSQL-l] tigr.pm   Hilmar Lapp
• [Bioperl-l] HG-U133a annotation csv (HG-U133A_annot.csv)   D.Enrique ESCOBAR ESPINOZA
  • [Bioperl-l] HG-U133a annotation csv (HG-U133A_annot.csv)   Peter Robinson
    • [Bioperl-l] HG-U133a annotation csv (HG-U133A_annot.csv)   Jason Stajich
      • [Bioperl-l] HG-U133a annotation csv (HG-U133A_annot.csv)   Chervitz, Steve
• [Bioperl-l] Installing bioperl-ext-1.4   bcur001 at ec.auckland.ac.nz
  • [Bioperl-l] Installing bioperl-ext-1.4   Aaron J. Mackey
• [Bioperl-l] How to mirror Bioperl?   이은정
• [Bioperl-l] Tabular BLAST output and SearchIO   michael watson (IAH-C)
  • [Bioperl-l] Tabular BLAST output and SearchIO   Jason Stajich
• [Bioperl-l] Tabular BLAST output and SearchIO   michael watson (IAH-C)
• [Bioperl-l] Getting score from Emboss-type alignment (water)   Pawel Szczesny
  • [Bioperl-l] Getting score from Emboss-type alignment (water)   Jason Stajich
• [Bioperl-l] Bio::Tools::BPbl2seq Parsing bl2seq   Harry Noyes
  • [Bioperl-l] Bio::Tools::BPbl2seq Parsing bl2seq   Jason Stajich
• [Bioperl-l] Getting query start and end from blast table report   michael watson (IAH-C)
  • [Bioperl-l] Getting query start and end from blast table report   Jason Stajich
• [Bioperl-l] Entrez Gene and bioperl-db   Law, Annie
  • [Bioperl-l] Entrez Gene and bioperl-db   Hilmar Lapp
  • [Bioperl-l] Entrez Gene and bioperl-db   Sean Davis
• [Bioperl-l] Re: How can I extract the orientation from a blastreport using BPlite   Jason Stajich
• [Bioperl-l] Parsing TGICL-CAP3 ACE result files   Javier Forment Millet
• [Bioperl-l] copying Bio::Tree::Tree objects   Jon manning
  • [Bioperl-l] copying Bio::Tree::Tree objects   Jason Stajich
    • [Bioperl-l] copying Bio::Tree::Tree objects   James Abbott
• [Bioperl-l] Parsing TGICL-CAP3 ACE result files   Marc Logghe
• [Bioperl-l] Parsing TGICL-CAP3 ACE result files   Javier Forment Millet
• [Bioperl-l] Parsing TGICL-CAP3 ACE result files   Marc Logghe
• [Bioperl-l] Entrez Gene and bioperl-db   Sean Davis
  • [Bioperl-l] Entrez Gene and bioperl-db   Hilmar Lapp
• [Bioperl-l] references in swissprot   Hilmar Lapp
• [Bioperl-l] SeqIO fails on masked sequences   Wes Barris
• [Bioperl-l] [EMBL reformatter problem with large acc_number]   Sebastien Moretti
  • [Bioperl-l] [EMBL reformatter problem with large acc_number]   simon andrews (BI)
    • [Bioperl-l] [EMBL reformatter problem with large acc_number]   Sebastien Moretti
      • [Bioperl-l] [EMBL reformatter problem with large acc_number]   simon andrews (BI)
      • [Bioperl-l] [EMBL reformatter problem with large acc_number]   Heikki Lehvaslaiho
• [Bioperl-l] SeqIO fails on masked sequences   Marc Logghe
  • [Bioperl-l] SeqIO fails on masked sequences   Wes Barris
• [Bioperl-l] nmake test failures   Nathan Haigh
• [Bioperl-l] bitscore and rawscore for blast reports   Razi Khaja
• [Bioperl-l] bitscore and rawscore for blast reports   Marc Logghe
• [Bioperl-l] bitscore and rawscore for blast reports   Razi Khaja
  • [Bioperl-l] bitscore and rawscore for blast reports   Jason Stajich
• [Bioperl-l] bitscore and rawscore for blast reports   Marc Logghe
• [Bioperl-l] Bio::SeqIO::staden::read problem   xuying
  • [Bioperl-l] Bio::SeqIO::staden::read problem   Aaron J. Mackey
• [Bioperl-l] SeqIO fails on masked sequences   Marc Logghe
  • [Bioperl-l] SeqIO fails on masked sequences   Nathan Haigh
    • [Bioperl-l] SeqIO fails on masked sequences   Wes Barris
• [Bioperl-l] SeqIO fails on masked sequences   Marc Logghe
  • [Bioperl-l] SeqIO fails on masked sequences   Nathan Haigh
• [Bioperl-l] bio::graphics::panel under mod_perl   Sean Davis
  • [Bioperl-l] bio::graphics::panel under mod_perl   Sean Davis
    • [Bioperl-l] bio::graphics::panel under mod_perl   Sean Davis
  • [Bioperl-l] bio::graphics::panel under mod_perl   Lincoln Stein
• [Bioperl-l] parse long organism name   Qunfeng
  • [Bioperl-l] parse long organism name   Hilmar Lapp
• [Bioperl-l] searching Bioperl archives   Chris Fields
  • [Bioperl-l] searching Bioperl archives   Barry Moore
    • [Bioperl-l] searching Bioperl archives   Wes Barris
      • [Bioperl-l] searching Bioperl archives   Chris Fields
      • [Bioperl-l] searching Bioperl archives   Jurgen Pletinckx
• [Bioperl-l] Bio::SeqIO::staden::read problem   xuying
  • [Bioperl-l] Bio::SeqIO::staden::read problem   Aaron J. Mackey
• [Bioperl-l] Bio::SeqIO::staden::read problem   xuying
  • [Bioperl-l] Bio::SeqIO::staden::read problem   Aaron J. Mackey
    • [Bioperl-l] Bio::SeqIO::staden::read problem   Aaron J. Mackey
• [Bioperl-l] nmake test on windows   Nathan Haigh
• [Bioperl-l] problem installing bioperl on cygwin   Yoram Burak
  • [Bioperl-l] problem installing bioperl on cygwin   Paulo Almeida
  • [Bioperl-l] problem installing bioperl on cygwin   Brian Osborne
• [Bioperl-l] weird behavior with bulk_load_gff   Michael Eisen
  • [Bioperl-l] weird behavior with bulk_load_gff   Allen Day
    • [Bioperl-l] weird behavior with bulk_load_gff   Allen Day
• [Bioperl-l] does RichSeq carry xrefs?   Lukasz Huminiecki
  • [Bioperl-l] does RichSeq carry xrefs?   Jason Stajich
• [Bioperl-l] ppm of bioperl release candidate   Scott Cain
  • [Bioperl-l] ppm of bioperl release candidate   Lincoln Stein
  • [Bioperl-l] ppm of bioperl release candidate   Nathan Haigh
    • [Bioperl-l] ppm of bioperl release candidate   Scott Cain
• [Bioperl-l] RE: Bioperl 1.4.0(BUG)   Brian Osborne
• [Bioperl-l] Fwd: Bioperl 1.4.0(BUG)   Jason Stajich
  • [Bioperl-l] Fwd: Bioperl 1.4.0(BUG)   Paulo Almeida
• [Bioperl-l] FW: Bioperl 1.4.0(BUG)   Brian Osborne
• [Bioperl-l] FW: Bioperl 1.4.0(BUG)   Marc Logghe
• [Bioperl-l] Contributing to bioperl?   Razi Khaja
• [Bioperl-l] "feature" in Bio::Restriction::Analysis   Andrew Nunberg
  • [Bioperl-l] "feature" in Bio::Restriction::Analysis   James Thompson
• [Bioperl-l] scf writing issues   Marc Logghe
• [Bioperl-l] Looking for module that extract EPD database   Edward Wijaya
• [Bioperl-l] Beginners HOWTO   Brian Osborne
• [Bioperl-l] Converting GFF2 records to GFF3   Razi Khaja
• [Bioperl-l] scf writing issues   Marc Logghe
• [Bioperl-l] problems running Bio::SearchIO on the FASTA results   Christie Robertson
• [Bioperl-l] improve speed in extracting Fasta sequence   Siaw Ling Lo
  • [Bioperl-l] improve speed in extracting Fasta sequence   Rob Edwards
• [Bioperl-l] Entrez Gene and bioperl-db   Hilmar Lapp
• [Bioperl-l] Bio::Tools::Run::Alignment::Muscle Problem   Till Bayer
• [Bioperl-l] BioPerl Parsing problems   David García Cortés
  • [Bioperl-l] BioPerl Parsing problems   Jason Stajich
• [Bioperl-l] Spidey Parser   Ryan Golhar
• [Bioperl-l] problems running Bio::SearchIO on the FASTA results   Jason Stajich
  • [Bioperl-l] problems running Bio::SearchIO on the FASTA results   Christie Robertson
• [Bioperl-l] Re: Converting GFF2 records to GFF3   Scott Cain
• [Bioperl-l] Re: Questions about Bio::AlignIO::maf   Allen Day
  • [Bioperl-l] Re: Questions about Bio::AlignIO::maf   Lee Ping Alison
    • [Bioperl-l] Re: Questions about Bio::AlignIO::maf   James Thompson
      • [Bioperl-l] Re: Questions about Bio::AlignIO::maf   Lee Ping Alison
• [Bioperl-l] error from GenBank   Stefan Weckx
  • [Bioperl-l] error from GenBank   Rob Edwards
• [Bioperl-l] Re: [Bioperl-guts-l] bioperl-live/Bio/Factory FTLocationFactory.pm, 1.15, 1.16   Aaron J. Mackey
  • [Bioperl-l] Re: Bio/Factory FTLocationFactory.pm, 1.15, 1.16   Hilmar Lapp
• [Bioperl-l] Bioperl in 2005   Jason Stajich
  • [Bioperl-l] Bioperl in 2005   Paulo Almeida
  • [Bioperl-l] Bioperl in 2005   Ryan Golhar
• [Bioperl-l] SeqIO, Write to File   hafiz hafiz
  • [Bioperl-l] SeqIO, Write to File   Paulo Almeida
    • [Bioperl-l] SeqIO, Write to File   hafiz hafiz
• [Bioperl-l] Re: Bioperl in 2005 (Jason Stajich)   Venky Nandagopal
  • [Bioperl-l] Re: Bioperl in 2005 (Jason Stajich)   Ewan Birney

Last message date: Thu Dec 30 12:32:37 EST 2004
Archived on: Thu Dec 30 12:24:17 EST 2004

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