lang.perl.bio.general (thread)

My last weekend first, Novak
Bioperl MAN pages install: where?, NO SPAM
- Re: Bioperl MAN pages install: where?, Jason Stajich
Filehandle interface in Bio::AlignIO: broken in 1.4?, NO SPAM
- Re: Filehandle interface in Bio::AlignIO: broken in 1.4?, Jason Stajich
Quick note about fink and libgd when installing Bio::Graphics or GD.pm on OS X, NO SPAM
- Re: Quick note about fink and libgd when installing Bio::Graphics or GD.pm on OS X, Todd Harris
Bio::UnivAln mourned, NO SPAM
- Re: Bio::UnivAln mourned, Heikki Lehvaslaiho
Bio::Species / Bio::Taxonomy::Node, Jason Stajich
- Re: Bio::Species / Bio::Taxonomy::Node, Hilmar Lapp
Difference between (BLAST outputs), T.D. Houfek
creating a tree from scratch ?, Iain Wallace
- Re: creating a tree from scratch ?, Jason Stajich
SearchIO, william ritchie
- Re: SearchIO, Jason Stajich
Difference between, tai kwan do
- RE: Difference between, Wiepert, Mathieu
- RE: Difference between, Wiepert, Mathieu
- RE: Difference between, Joseph Bedell
- RE: Difference between, Alan Li
Accept Electronic Checks Now!, achnow
3-frame and 6-frame translation, Barry Moore
- RE: 3-frame and 6-frame translation, Brian Osborne
Rooting a tree, Iain Wallace
Failed mail, NTMail
Testing BioPerl objects for equality, Peter van Heusden
- Re: Testing BioPerl objects for equality, Ewan Birney
BioPerl-run Primer3 trouble, john herbert
- Re: BioPerl-run Primer3 trouble, Rob Edwards
2 psi-blast questions, Hadas Leonov
- Re: 2 psi-blast questions, Donald G. Jackson
  - Re: 2 psi-blast questions, Hadas Leonov
  - Re: 2 psi-blast questions, Andreas Bernauer
    - Re: 2 psi-blast questions, Donald G. Jackson
more installation troubles on Alpha, Fernan Aguero
Application using Bioperl, Law, Annie
- Re: Application using Bioperl, Barry Moore
Position Available: Bioinformatics Software Developer, Joel Dudley
Bio::SeqIO::new possible wierdness, Peter van Heusden
- Re: Bio::SeqIO::new possible wierdness, Donald G. Jackson
  - Re: Bio::SeqIO::new possible wierdness, Jason Stajich
    - Re: Bio::SeqIO::new possible wierdness, Peter van Heusden
    - Re: Bio::SeqIO::new possible wierdness, Jason Stajich
    - RE: Bio::SeqIO::new possible wierdness, Brian Osborne
    - RE: Bio::SeqIO::new possible wierdness, Jason Stajich
    - RE: Bio::SeqIO::new possible wierdness, Chris Dagdigian
- RE: Bio::SeqIO::new possible wierdness, Brian Osborne
Re: test, vsuni
installation trouble, June Tantoolvesm
- RE: installation trouble, Brian Osborne
  - RE: installation trouble, Jason Stajich
  - RE: installation trouble, Jason Stajich
    - RE: installation trouble, June Tantoolvesm
Bio::SeqIO::tinyseq, Donald Jackson
- Re: Bio::SeqIO::tinyseq, Heikki Lehvaslaiho
  - Re: Bio::SeqIO::tinyseq, Dave Howorth
    - Re: Bio::SeqIO::tinyseq, Heikki Lehvaslaiho
Question about using XML::Parser::PerlSAX for sequence parsing, Donald G. Jackson
Popgene::Statistics, Eric Wang
- Re: Popgene::Statistics, Jason Stajich
Réf. : Re: problem with pir sequence, sebastien . frade
'Raw' archive of bioperl-guts mailing list?, Peter van Heusden
- Re: 'Raw' archive of bioperl-guts mailing list?, Jason Stajich
- Re: 'Raw' archive of bioperl-guts mailing list?, Chris Dagdigian
problem with pir sequence, sebastien . frade
- Re: problem with pir sequence, Jason Stajich
reducing time, KHOUEIRY pierre
- Re: reducing time, Heikki Lehvaslaiho
  - Re: reducing time, Andreas Bernauer
    - Re: reducing time, Chris Dagdigian
    - Re: reducing time, Gregory Wilson
    - Re: reducing time, Josh Lauricha
- Fwd: Re: reducing time, Heikki Lehvaslaiho
- reducing time, KHOUEIRY pierre
  - Re: reducing time, Andreas Bernauer
Bio ::seqIO ::tigr, matthieu CONTE
- Re: Bio ::seqIO ::tigr, Heikki Lehvaslaiho
- Re: Bio ::seqIO ::tigr, Keith James
- Re: Bio ::seqIO ::tigr, Hilmar Lapp
- Re: Bio ::seqIO ::tigr, matthieu CONTE
  - Re: Bio ::seqIO ::tigr, Hilmar Lapp
- RE: Bio ::seqIO ::tigr, Marc Logghe
Virus Warning, administrator
RemoteBlast again, william ritchie
- RE: RemoteBlast again, Brian Osborne
- RemoteBlast again, william ritchie
  - Re: RemoteBlast again, Jason Stajich
Oflfer of 21 CENTURY scent!, Dmarlin
bioperl.org ranked # 43 in Google for Biology Tutorial Software, Becky P. Marshall
Re: Experiences from a newbie, Andreas Bernauer
Email, Marketing
- Email, Marketing
hi, KHOUEIRY pierre
- RE: hi, Marc Logghe
RemoteBlast/Sim4, william ritchie
- RE: RemoteBlast/Sim4, Marc Logghe
Sequence Assembly:phrap to gap, Anthony Underwood
- RE: Sequence Assembly:phrap to gap, Brian Osborne
- RE: Sequence Assembly:phrap to gap, Cook, Malcolm
they used to be the only ones., Barrett
EST functional categories, Joshua A Udall
- Re: EST functional categories, Eckhard Lehmann
  - Re: EST functional categories, Joshua A Udall
Alignment Blast parser, Agrin, Nathan
- Re: Alignment Blast parser, Jason Stajich
  - RE: Alignment Blast parser, Brian Osborne
    - RE: Alignment Blast parser, Will Spooner
    - RE: Alignment Blast parser, Jason Stajich
    - RE: Alignment Blast parser, Will Spooner
    - RE: Alignment Blast parser, Jason Stajich
- RE: Alignment Blast parser, Agrin, Nathan
  - RE: Alignment Blast parser, Jason Stajich
- RE: Alignment Blast parser, Jason Stajich
need help, KHOUEIRY pierre
- Re: need help, Gert Thijs
  - Re: need help, Donald G. Jackson
- RE: need help, Marc Logghe
recent spams to bioperl-l, Chris Dagdigian
- Re: recent spams to bioperl-l, Aaron J. Mackey
  - Re: recent spams to bioperl-l, Hilmar Lapp
    - RE: recent spams to bioperl-l, Brian Osborne
- Re: recent spams to bioperl-l, Edward Elhauge
  - Bio::SearchIO::axt - getting summary field info, Jonathan Lim
    - Re: Bio::SearchIO::axt - getting summary field info, Jason Stajich
    - Re: Bio::SearchIO::axt - getting summary field info, Jonathan Lim
- Re: recent spams to bioperl-l, Heikki Lehvaslaiho
  - Re: recent spams to bioperl-l, Gordon D. Pusch
nesws regarding vigros volley, Media
seting the location of tempdir, Nathan Haigh
- Re: seting the location of tempdir, Jason Stajich
Bioperl and Entrez Gene Database, Agrin, Nathan
- RE: Bioperl and Entrez Gene Database, Brian Osborne
Bio::Ontology support for several indentifiers per term, Pär Engström
- Re: Bio::Ontology support for several indentifiers per term, Hilmar Lapp
Document Migration & e-Books Development Services, Dhiraj Aggarwal
Small changes to some Annotation methods?, Stefan Kirov
- Re: Small changes to some Annotation methods?, Jason Stajich
  - Re: Small changes to some Annotation methods?, Stefan Kirov
- Re: Small changes to some Annotation methods?, Hilmar Lapp
  - Re: Small changes to some Annotation methods?, Lincoln Stein
Installing bioperl-ext-1.4 modules question, William Rose
Boost Protein Expression by Codon Optimization, Sally Wang
bio.indiana mirror not up to date, James Gilbert
- Re: bio.indiana mirror not up to date, Heikki Lehvaslaiho
  - Re: bio.indiana mirror not up to date, Heikki Lehvaslaiho
How to obtain the nucleotide coding sequence., Valentin Ruano
- Re: How to obtain the nucleotide coding sequence., Jason Stajich
- RE: How to obtain the nucleotide coding sequence., Brian Osborne
URGENT, Indris Yahaya
Ensembl people oot there...., Stefan Kirov
- Re: Ensembl people oot there...., Jason Stajich
- Re: Ensembl people oot there...., James Smith
- Re: Ensembl people oot there...., Stefan Kirov
get cds from genbank record, Pedro Antonio Reche
- Re: get cds from genbank record, Heikki Lehvaslaiho
  - Re: get cds from genbank record, Pedro Antonio Reche
    - Re: get cds from genbank record, Heikki Lehvaslaiho
    - Re: get cds from genbank record, Lincoln Stein
    - Re: get cds from genbank record, Andreas Bernauer
    - maxstrengthmail confirmation [Re: get cds from genbank record], Heikki Lehvaslaiho
Getting started, Sean Davis
How to handle multiple locations for SeqFeature, mack
- Re: How to handle multiple locations for SeqFeature, Jason Stajich
- RE: How to handle multiple locations for SeqFeature, Brian Osborne
  - Re: How to handle multiple locations for SeqFeature, mack
Genbank file construction, Milo Thurston
- Genbank file construction, Richard Adams
Problem Bioperl::SearchIO, Laubin BASTIEN
- Re: Problem Bioperl::SearchIO, Jason Stajich
- Regular Expressions, Lukas Schneider
  - Re: Regular Expressions, Aaron J. Mackey
Running Clustalw using BioPerl Via cgi script, Nathan Haigh
- Re: Running Clustalw using BioPerl Via cgi script, Jason Stajich
  - RE: Running Clustalw using BioPerl Via cgi script, Nathan Haigh
BSML?, Wiepert, Mathieu
->alphabet documentation wrong here there and everywhere :-), Mark Wilkinson
- Re: ->alphabet documentation wrong here there and everywhere :-), Jason Stajich
  - Re: [BioPerl] Re: ->alphabet documentation wrong here there and everywhere :-), Mark Wilkinson
    - Re: [BioPerl] Re: ->alphabet documentation wrong here there and everywhere :-), Ewan Birney
    - Re: [BioPerl] Re: ->alphabet documentation wrong here there and everywhere :-), Mark Wilkinson
    - Re: mutable accessors, Hilmar Lapp
    - Re: Re: mutable accessors, Juguang Xiao
gff_string on an HSPI object is not Bio::DB::GFF friendly, Mark Wilkinson
- Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Scott Cain
  - biographics now backwardly GD 1.8 compatible, Lincoln Stein
- Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Jason Stajich
  - Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Scott Cain
  - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Mark Wilkinson
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Jason Stajich
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Mark Wilkinson
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Scott Cain
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Mark Wilkinson
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Scott Cain
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Mark Wilkinson
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Aaron J.Mackey
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Scott Cain
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Aaron J.Mackey
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Allen Day
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Scott Cain
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Aaron J.Mackey
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Lincoln Stein
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Allen Day
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Jason Stajich
    - Re: [BioPerl] Re: gff_string on an HSPI object is not Bio::DB::GFF friendly, Mark Wilkinson
Packaging BioPerl for mandrake linux, Guillaume Rousse
- Re: Packaging BioPerl for mandrake linux, Aaron J. Mackey
  - Re: Packaging BioPerl for mandrake linux, Guillaume Rousse
    - Re: Packaging BioPerl for mandrake linux, Guillaume Rousse
    - Re: Packaging BioPerl for mandrake linux, Aaron J.Mackey
    - Re: Packaging BioPerl for mandrake linux, Guillaume Rousse
    - Re: Packaging BioPerl for mandrake linux, Guillaume Rousse
    - Re: Packaging BioPerl for mandrake linux, Jason Stajich
    - Re: Packaging BioPerl for mandrake linux, Aaron J. Mackey
compatibility problem of SeqIO, Gert Thijs
- Re: compatibility problem of SeqIO, Jason Stajich
  - Re: compatibility problem of SeqIO, Gert Thijs
- RE: compatibility problem of SeqIO, Marc Logghe
  - RE: compatibility problem of SeqIO, Gert Thijs
swisprot.dat, perin
RemoteBlast, Holland, Richard
- RemoteBlast, william ritchie
  - RE: RemoteBlast, Brian Osborne
TIGR xml parser(s), Jason Stajich
- Re: TIGR xml parser(s), Josh Lauricha
loading sprot.dat, Robinson, Peter
- RE: loading sprot.dat, Brian Osborne
  - Re: loading sprot.dat, peter robinson
    - RE: loading sprot.dat, Brian Osborne
- Re: loading sprot.dat, Juguang Xiao
Fwd: mistake in documentation, Aaron J.Mackey
Mid point rooting of a tree, Iain Wallace
- RE: Mid point rooting of a tree, Chris Zmasek
Trouble installing bioperl-1.4 due to RestrictionIO, bhurwitz
- Re: Trouble installing bioperl-1.4 due to RestrictionIO, Jason Stajich
  - Re: Trouble installing bioperl-1.4 due to RestrictionIO, Rob Edwards
    - RE: Trouble installing bioperl-1.4 due to RestrictionIO, Brian Osborne
    - RE: Trouble installing bioperl-1.4 due to RestrictionIO, Jason Stajich
    - RE: Trouble installing bioperl-1.4 due to RestrictionIO, Brian Osborne
- RE: Trouble installing bioperl-1.4 due to RestrictionIO, jun hu
- RE: Trouble installing bioperl-1.4 due to RestrictionIO, bhurwitz
Clones and Unigene annotation, Law, Annie
- RE: Clones and Unigene annotation, Brian Osborne
- RE: Clones and Unigene annotation, Nathan \(Nat\) Goodman
rendering features on global alignments, Tordoir Xavier
Trouble installing bioperl-ext-1.4, Barry Moore
- Re: Trouble installing bioperl-ext-1.4, Jason Stajich
  - Re: Trouble installing bioperl-ext-1.4, Barry Moore
    - Re: Trouble installing bioperl-ext-1.4, Aaron J Mackey
    - Re: Trouble installing bioperl-ext-1.4, Guillaume Rousse
    - Re: Trouble installing bioperl-ext-1.4, Aaron J.Mackey
GCG and Perl, Laurence Amilhat
- RE: GCG and Perl, Brian Osborne
  - RE: GCG and Perl, Jason Stajich
- Re: GCG and Perl, Catherine Letondal
- GCG and Perl, Freimuth,Robert
Re: Alternate hit sorting for Bio::Search::Result objects, Donald Jackson
Relations, Holland, Richard
- Re: Relations, Hilmar Lapp
- RE: Relations, Holland, Richard
Interpro parsing problems - and solutions, Holland, Richard
- Re: Interpro parsing problems - and solutions, Juguang Xiao
- RE: Interpro parsing problems - and solutions, Holland, Richard
Gaps in sequences, Holland, Richard
- Re: Gaps in sequences, Jason Stajich
- RE: Gaps in sequences, Holland, Richard
biometrics, DBSMITH
- Re: biometrics, Heikki Lehvaslaiho
new sourforge project using bioperl: RFLP planner, Felipe Wettstein
Could not load GO terms to BioSQL, Holland, Richard
- Re: Could not load GO terms to BioSQL, Hilmar Lapp
Errors loading RefSeqs, Holland, Richard
- Re: Errors loading RefSeqs, Hilmar Lapp
Re: Out of Office AutoReply: where is "sw.h" ?, Koen van der Drift
where is "sw.h" ?, Koen van der Drift
Re: bioperl graphic question, jun hu
- Re: bioperl graphic question, jun hu
Controlling glyph position with Bio::Graphics::Panel, Donald Jackson
- Re: Controlling glyph position with Bio::Graphics::Panel, Lincoln Stein
  - Re: Controlling glyph position with Bio::Graphics::Panel, Donald G. Jackson
Re: Bug in SeqIO genbank output, Wes Barris
- Re: Bug in SeqIO genbank output, Jason Stajich
  - Re: Bug in SeqIO genbank output, Heikki Lehvaslaiho
a minor correction, Jack Chen
Re: my bioperl-db hacks, Heikki Lehvaslaiho
- Re: my bioperl-db hacks, T.D. Houfek
  - Re: my bioperl-db hacks, Lincoln Stein
Cannot make test on bioperl-db, Holland, Richard
[bioperl-l-bounces@xxxxxxxxxxxxxxxxxxx: Your message to Bioperl-l awaits moderator approval], Andreas Bernauer