April 2007 Archives by thread

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Starting: Mon Apr 2 02:54:58 UTC 2007
Ending: Tue May 1 00:22:35 UTC 2007
Messages: 247

[Bioperl-l] installation bioperl David Messina
[Bioperl-l] bioperl and kegg(out of memory problem ) Ambrose
- [Bioperl-l] bioperl and kegg(out of memory problem ) Chris Fields
  - [Bioperl-l] bioperl and kegg(out of memory problem ) Ambrose
    - [Bioperl-l] bioperl and kegg(out of memory problem ) Chris Fields
[Bioperl-l] Can't locate object method "seq_start" via package "Bio::DB::GenBank" Eric Just
- [Bioperl-l] Can't locate object method "seq_start" via package "Bio::DB::GenBank" Eric Just
[Bioperl-l] installation bioperl David Messina
- [Bioperl-l] installation bioperl Sendu Bala
[Bioperl-l] Fwd: BLAST beta, URLAPI, and BioPerl (RemoteBlast users) Chris Fields
[Bioperl-l] Packaging bioperl for Fedora Stéphane Téletchéa
- [Bioperl-l] Packaging bioperl for Fedora Chris Fields
  - [Bioperl-l] Packaging bioperl for Fedora Allen Day
    - [Bioperl-l] Packaging bioperl for Fedora Chris Fields
[Bioperl-l] Packaging bioperl for Fedora Sendu Bala
[Bioperl-l] Re: read it immediately Michael Pain
- [Bioperl-l] read it immediately Thiago Venancio
[Bioperl-l] blastall problem DeeGee
- [Bioperl-l] blastall problem David Messina
  - [Bioperl-l] blastall problem DeeGee
- [Bioperl-l] blastall problem Torsten Seemann
  - [Bioperl-l] blastall problem DeeGee
- [Bioperl-l] blastall problem Torsten Seemann
  - [Bioperl-l] blastall problem DeeGee
    - [Bioperl-l] blastall problem Chris Fields
    - [Bioperl-l] blastall problem Torsten Seemann
    - [Bioperl-l] blastall problem DeeGee
    - [Bioperl-l] blastall problem Jason Stajich
    - [Bioperl-l] blastall problem DeeGee
    - [Bioperl-l] blastall problem Jason Stajich
    - [Bioperl-l] blastall problem DeeGee
    - [Bioperl-l] blastall problem Bernd Web
[Bioperl-l] How to patch something in installed bioperl module Gowthaman Ramasamy
- [Bioperl-l] How to patch something in installed bioperl module Torsten Seemann
[Bioperl-l] Small bug in Bio::Tools::GFF.pm - Target output Don Gilbert
- [Bioperl-l] Small bug in Bio::Tools::GFF.pm - Target output Sendu Bala
[Bioperl-l] Help parsing PSI-BLAST XML reports Torsten Seemann
- [Bioperl-l] Help parsing PSI-BLAST XML reports Chris Fields
[Bioperl-l] Mixed bless-ings with Bio::Seq/Bio::PrimarySeq (Bio::Seq::Meta::Array) Chris Fields
- [Bioperl-l] Mixed bless-ings with Bio::Seq/Bio::PrimarySeq (Bio::Seq::Meta::Array) Hilmar Lapp
  - [Bioperl-l] Mixed bless-ings with Bio::Seq/Bio::PrimarySeq (Bio::Seq::Meta::Array) Chris Fields
    - [Bioperl-l] Mixed bless-ings with Bio::Seq/Bio::PrimarySeq (Bio::Seq::Meta::Array) Michael Kiwala
[Bioperl-l] Bio::Annotation::Collection strange behavior Emmanuel Quevillon
- [Bioperl-l] Bio::Annotation::Collection strange behavior David Messina
[Bioperl-l] Bio/DB/SeqFeature/Store/DBI/mysql.pm patched Cook, Malcolm
[Bioperl-l] Bio::DB::Fasta check for ragged line widths Don Gilbert
- [Bioperl-l] Bio::DB::Fasta check for ragged line widths Hilmar Lapp
- [Bioperl-l] Bio::DB::Fasta check for ragged line widths Brian Osborne
  - [Bioperl-l] Bio::DB::Fasta check for ragged line widths Lincoln Stein
[Bioperl-l] Bio::DB::Fasta check for ragged line widths Don Gilbert
- [Bioperl-l] Bio::DB::Fasta check for ragged line widths Hilmar Lapp
[Bioperl-l] Bio::DB::Fasta check for ragged line widths Don Gilbert
- [Bioperl-l] Bio::DB::Fasta check for ragged line widths Hilmar Lapp
[Bioperl-l] parse blast report for the best evalue DeeGee
- [Bioperl-l] parse blast report for the best evalue Chris Fields
  - [Bioperl-l] parse blast report for the best evalue DeeGee
[Bioperl-l] Retrieve mRNA from Genome Staffa, Nick (NIH/NIEHS)
- [Bioperl-l] Retrieve mRNA from Genome Kevin Brown
[Bioperl-l] extract nonoverlapping subsequences from a whole genome gopu_36
- [Bioperl-l] extract nonoverlapping subsequences from a whole genome Sendu Bala
- [Bioperl-l] extract nonoverlapping subsequences from a whole genome Chris Fields
- [Bioperl-l] extract nonoverlapping subsequences from a whole genome Chris Fields
[Bioperl-l] Bio::DB::SeqFeature::Store -cache option Cook, Malcolm
- [Bioperl-l] Bio::DB::SeqFeature::Store -cache option Chris Fields
[Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Chris Fields
- [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Spiros Denaxas
  - [Bioperl-l] ] moving tests to use Test::More Chris Fields
- [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Nathan Haigh
  - [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Spiros Denaxas
    - [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Heikki Lehvaslaiho
    - [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Chris Fields
    - [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Spiros Denaxas
    - [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Spiros Denaxas
    - [Bioperl-l] [Bioperl-guts-l] moving tests to use Test::More Chris Fields
[Bioperl-l] Fwd: SimpleAlign bug? Heikki Lehvaslaiho
- [Bioperl-l] Fwd: SimpleAlign bug? Chris Fields
  - [Bioperl-l] Fwd: SimpleAlign bug? Chris Fields
- [Bioperl-l] Fwd: SimpleAlign bug? Kevin Brown
  - [Bioperl-l] Fwd: SimpleAlign bug? Spiros Denaxas
  - [Bioperl-l] Fwd: SimpleAlign bug? Michael Kiwala
    - [Bioperl-l] Fwd: SimpleAlign bug? Chris Fields
    - [Bioperl-l] Fwd: SimpleAlign bug? Kevin Brown
    - [Bioperl-l] Fwd: SimpleAlign bug? Sendu Bala
  - [Bioperl-l] Fwd: SimpleAlign bug? Andreas Kahari
  - [Bioperl-l] Fwd: SimpleAlign bug? Sendu Bala
[Bioperl-l] How to Remove root node from a tree, ??? kenzy ken
- [Bioperl-l] How to Remove root node from a tree, ??? Sendu Bala
[Bioperl-l] rpsblast results unsupported by Bio::SearchIO::Writer Emeric Sevin
- [Bioperl-l] rpsblast results unsupported by Bio::SearchIO::Writer Chris Fields
- [Bioperl-l] rpsblast results unsupported by Bio::SearchIO::Writer Jason Stajich
  - [Bioperl-l] rpsblast results unsupported by Bio::SearchIO::Writer Emeric Sevin
[Bioperl-l] Affys ReseqChip Marian Thieme
- [Bioperl-l] Affys ReseqChip Jonathan Epstein
[Bioperl-l] Thoughts on Bio::Tools::Glimmer Andrew Stewart
- [Bioperl-l] Thoughts on Bio::Tools::Glimmer Torsten Seemann
  - [Bioperl-l] Thoughts on Bio::Tools::Glimmer Mark Johnson
    - [Bioperl-l] Thoughts on Bio::Tools::Glimmer Chris Fields
    - [Bioperl-l] Thoughts on Bio::Tools::Glimmer Andrew Stewart
    - [Bioperl-l] Thoughts on Bio::Tools::Glimmer Mark Johnson
[Bioperl-l] Odd spamming on bioperl wiki Chris Fields
- [Bioperl-l] Odd spamming on bioperl wiki Mark Johnson
  - [Bioperl-l] Odd spamming on bioperl wiki Chris Fields
    - [Bioperl-l] Odd spamming on bioperl wiki Spiros Denaxas
    - [Bioperl-l] Odd spamming on bioperl wiki Mauricio Herrera Cuadra
    - [Bioperl-l] Odd spamming on bioperl wiki Spiros Denaxas
    - [Bioperl-l] Odd spamming on bioperl wiki Mauricio Herrera Cuadra
    - [Bioperl-l] Odd spamming on bioperl wiki Chris Fields
    - [Bioperl-l] Odd spamming on bioperl wiki Spiros Denaxas
[Bioperl-l] GenericHit->start/end needs tiled hsps? Sendu Bala
- [Bioperl-l] GenericHit->start/end needs tiled hsps? Steve Chervitz
[Bioperl-l] Affys ReseqChip Marian Thieme
[Bioperl-l] How to parse blast result to get 2nd best hit score gopu_36
- [Bioperl-l] How to parse blast result to get 2nd best hit score Jason Stajich
[Bioperl-l] extracting coding sequence from BLAST Thiago Venancio
- [Bioperl-l] extracting coding sequence from BLAST Jason Stajich
  - [Bioperl-l] extracting coding sequence from BLAST Thiago Venancio
    - [Bioperl-l] extracting coding sequence from BLAST Jason Stajich
[Bioperl-l] error while remote blast against swissprot db DeeGee
- [Bioperl-l] error while remote blast against swissprot db David Messina
  - [Bioperl-l] error while remote blast against swissprot db Spiros Denaxas
    - [Bioperl-l] error while remote blast against swissprot db DeeGee
    - [Bioperl-l] error while remote blast against swissprot db David Messina
    - [Bioperl-l] error while remote blast against swissprot db Chris Fields
    - [Bioperl-l] error while remote blast against swissprot db DeeGee
    - [Bioperl-l] error while remote blast against swissprot db Chris Fields
    - [Bioperl-l] error while remote blast against swissprot db DeeGee
    - [Bioperl-l] error while remote blast against swissprot db Chris Fields
    - [Bioperl-l] error while remote blast against swissprot db DeeGee
    - [Bioperl-l] error while remote blast against swissprot db DeeGee
    - [Bioperl-l] error while remote blast against swissprot db DeeGee
[Bioperl-l] error with blast parsing by searchIO sergei ryazansky
- [Bioperl-l] error with blast parsing by searchIO Chris Fields
- [Bioperl-l] error with blast parsing by searchIO Jason Stajich
  - [Bioperl-l] error with blast parsing by searchIO sergei ryazansky
    - [Bioperl-l] error with blast parsing by searchIO Sendu Bala
[Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Wijaya Edward
- [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Spiros Denaxas
  - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Wijaya Edward
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Spiros Denaxas
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Sean Davis
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Chris Mungall
- [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl David Messina
  - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Wijaya Edward
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl David Messina
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Kevin Brown
- [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Chris Fields
  - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Chris Mungall
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Chris Fields
    - [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Chris Mungall
- [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Wijaya Edward
- [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl Wijaya Edward
[Bioperl-l] Bio::Matrix::PSM::ProtPsm Chris Fields
[Bioperl-l] HOWTO:Writing BioPerl Tests Chris Fields
[Bioperl-l] [BioSQL-l] Problem loading GO. Hilmar Lapp
- [Bioperl-l] [BioSQL-l] Problem loading GO. Leighton Pritchard
  - [Bioperl-l] [BioSQL-l] Problem loading GO. Hilmar Lapp
    - [Bioperl-l] [BioSQL-l] Problem loading GO. Leighton Pritchard
    - [Bioperl-l] [BioSQL-l] Problem loading GO. Chris Fields
    - [Bioperl-l] [BioSQL-l] Problem loading GO. Leighton Pritchard
[Bioperl-l] CVS AND PAML Luba Pardo
- [Bioperl-l] CVS AND PAML Albert Vilella
  - [Bioperl-l] CVS AND PAML Luba Pardo
[Bioperl-l] Parsing FASTA m10 output Ioannis Kirmitzoglou
[Bioperl-l] How to Create Sequence and TFBS Graph with Perl Edward WIJAYA
[Bioperl-l] Packaging bioperl for Fedora Alex Lancaster
- [Bioperl-l] Packaging bioperl for Fedora Chris Fields
  - [Bioperl-l] Packaging bioperl for Fedora Alex Lancaster
    - [Bioperl-l] Packaging bioperl for Fedora Chris Fields
[Bioperl-l] [Fwd: Re: How to Create Sequence and TFBS Graph with Perl] Stefan Kirov
- [Bioperl-l] [Fwd: Re: How to Create Sequence and TFBS Graph with Perl] Shameer Khadar
  - [Bioperl-l] [Fwd: Re: How to Create Sequence and TFBS Graph with Perl] Sean Davis
    - [Bioperl-l] Protparam using BioPerl Shameer Khadar
[Bioperl-l] Parsing FASTA m10 output Ioannis Kirmitzoglou
- [Bioperl-l] Parsing FASTA m10 output Chris Fields
  - [Bioperl-l] Parsing FASTA m10 output Ioannis Kirmitzoglou
    - [Bioperl-l] Parsing FASTA m10 output Hilmar Lapp
    - [Bioperl-l] Parsing FASTA m10 output Jason Stajich
    - [Bioperl-l] Parsing FASTA m10 output Chris Fields
    - [Bioperl-l] Parsing FASTA m10 output Ioannis Kirmitzoglou
    - [Bioperl-l] Parsing FASTA m10 output Jason Stajich
    - [Bioperl-l] Parsing FASTA m10 output Ioannis Kirmitzoglou
    - [Bioperl-l] Parsing FASTA m10 output Chris Fields
    - [Bioperl-l] Parsing FASTA m10 output aaron.j.mackey at gsk.com
    - [Bioperl-l] Parsing FASTA m10 output Chris Fields
[Bioperl-l] Packaging bioperl for Fedora Lincoln Stein
- [Bioperl-l] Packaging bioperl for Fedora Brian O'Connor
[Bioperl-l] bioperl-run and Bio::Root::AccessorMaker Alex Lancaster
- [Bioperl-l] Immediate-effect deprecations (was: bioperl-run and Bio::Root::AccessorMaker) Sendu Bala
  - [Bioperl-l] Immediate-effect deprecations (was: bioperl-run and Bio::Root::AccessorMaker) Chris Fields
    - [Bioperl-l] Immediate-effect deprecations Sendu Bala
    - [Bioperl-l] Immediate-effect deprecations Chris Fields
    - [Bioperl-l] Immediate-effect deprecations Hilmar Lapp
    - [Bioperl-l] Immediate-effect deprecations Chris Fields
  - [Bioperl-l] Immediate-effect deprecations (was: bioperl-run and Bio::Root::AccessorMaker) Hilmar Lapp
  - [Bioperl-l] Immediate-effect deprecations Alex Lancaster
    - [Bioperl-l] Immediate-effect deprecations Sendu Bala
- [Bioperl-l] To be deprecated: Bio::Tools::Run::AbstractRunner, Bio::Tools::Run::Phylo::Forester::SDI and Bio::Tools::Run::JavaRunner Sendu Bala
[Bioperl-l] DB.t (Bio::DB::Query::GenBank) failures Sendu Bala
- [Bioperl-l] DB.t (Bio::DB::Query::GenBank) failures Chris Fields
  - [Bioperl-l] DB.t (Bio::DB::Query::GenBank) failures Baik, Ki
    - [Bioperl-l] DB.t (Bio::DB::Query::GenBank) failures Chris Fields
[Bioperl-l] Skipping/Failing tests Chris Fields
- [Bioperl-l] Skipping/Failing tests Mauricio Herrera Cuadra
[Bioperl-l] tree copy by-value Stephen Montgomery
- [Bioperl-l] tree copy by-value Sendu Bala
- [Bioperl-l] tree copy by-value Jason Stajich
[Bioperl-l] tree copy by-value Stephen Montgomery
- [Bioperl-l] tree copy by-value Sendu Bala
[Bioperl-l] Bio::Graphics - Howto Show Negative Start-End and Enable Connector Edward Wijaya
[Bioperl-l] tree copy by-value Stephen Montgomery
[Bioperl-l] Bio::Graphics - Howto Show Negative Start-End and Enable Connector Wijaya Edward
- [Bioperl-l] Bio::Graphics - Howto Show Negative Start-End and Enable Connector Siddhartha Basu
[Bioperl-l] Small bug in Bio::Tools::GFF.pm - Target output Don Gilbert
- [Bioperl-l] Small bug in Bio::Tools::GFF.pm - Target output Brian Osborne
[Bioperl-l] How to Create Sequence and TFBS Graph with Perl Stefan Kirov
[Bioperl-l] Getting Gene Sequences with Bioperl Wijaya Edward
[Bioperl-l] ncbi blast -V T option Alexander Kozik
[Bioperl-l] WrapperBase / StandAloneBlast executable() method confusion Sendu Bala
- [Bioperl-l] WrapperBase / StandAloneBlast executable() method confusion Chris Fields
[Bioperl-l] lack of markers for some genotypes in some Bio::PopGen::Statistics methods Albert Vilella
[Bioperl-l] problem parsing FASTA output - bug or my fault? Aidan Budd
- [Bioperl-l] problem parsing FASTA output - bug or my fault? Jason Stajich
- [Bioperl-l] problem parsing FASTA output - bug or my fault? David Messina
[Bioperl-l] Handling discontiguous feature locations in Bio::DB::SeqFeature::Store -- proposed patch to Bio::Graphics::FeatureBase Cook, Malcolm
- [Bioperl-l] Handling discontiguous feature locations in Bio::DB::SeqFeature::Store -- proposed patch to Bio::Graphics::FeatureBase Lincoln Stein
  - [Bioperl-l] Handling discontiguous feature locations in Bio::DB::SeqFeature::Store -- proposed patch to Bio::Graphics::FeatureBase Cook, Malcolm
[Bioperl-l] check for the continous segments to extract the sequences gopu_36
- [Bioperl-l] check for the continous segments to extract the sequences Jason Stajich
  - [Bioperl-l] check for the continous segments to extract thesequences Cook, Malcolm
[Bioperl-l] bioperl::db Bernd Mueller
- [Bioperl-l] bioperl::db Bernd Mueller
  - [Bioperl-l] PMC and EUtilities, was bioperl::db Chris Fields
[Bioperl-l] What file format does Bio::CodonUsage::IO expect? Ben McIlwain
- [Bioperl-l] What file format does Bio::CodonUsage::IO expect? Chris Fields
  - [Bioperl-l] What file format does Bio::CodonUsage::IO expect? Ben McIlwain
    - [Bioperl-l] What file format does Bio::CodonUsage::IO expect? Chris Fields
    - [Bioperl-l] What file format does Bio::CodonUsage::IO expect? Ben McIlwain
[Bioperl-l] Bio::DB::Biblio::PDF - incomplete? Chris Fields
- [Bioperl-l] Bio::DB::Biblio::PDF - incomplete? Allen Day
  - [Bioperl-l] Bio::DB::Biblio::PDF - incomplete? Chris Fields
    - [Bioperl-l] Bio::DB::Biblio::PDF - incomplete? Allen Day
[Bioperl-l] Pb makefile Francoise.LECOMTE at biogemma.com
[Bioperl-l] PMC and EUtilities, was bioperl::db Chris Fields
[Bioperl-l] Bio::DB::Biblio::PDF - incomplete? Allen Day
- [Bioperl-l] Bio::DB::Biblio::PDF - incomplete? Chris Fields
[Bioperl-l] generate a fasta file from the blast report DeeGee
[Bioperl-l] generate a fasta file from the blast report Torsten Seemann

Last message date: Tue May 1 00:22:35 UTC 2007
Archived on: Mon Jun 16 02:48:08 UTC 2014

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