lang.perl.bio.general (thread)

introducing news.open-bio.org and new Bioperl news system, Chris Dagdigian
oligo_count script, Heikki Lehvaslaiho
Bio::Tools::SeqStat, Heikki Lehvaslaiho
ontology changes, Hilmar Lapp
predicting secondary structure, Nigam Shah
- predicting secondary structure, Richard Adams
Boxes and features..., William Boileau
- Re: Boxes and features..., Lincoln Stein
PostgreSQL & lookup & insert in bioperl-db, Hilmar Lapp
- Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Elia Stupka
  - Re: Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Hilmar Lapp
    - Re: Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Elia Stupka
    - Re: Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Thomas Down
- Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Yves Bastide
  - Re: Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Hilmar Lapp
    - Re: Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Yves Bastide
    - Re: Re: [BioSQL-l] PostgreSQL & lookup & insert in bioperl-db, Aaron J Mackey
- PostgreSQL & lookup & insert in bioperl-db, Charles Hauser
Bio::Ontology overhaul, Hilmar Lapp
- Re: Bio::Ontology overhaul, Paul Edlefsen
  - Re: Bio::Ontology overhaul, Hilmar Lapp
    - Re: Bio::Ontology overhaul, Paul Edlefsen
    - Re: Bio::Ontology overhaul, Hilmar Lapp
  - Re: Bio::Ontology overhaul, Hilmar Lapp
    - Re: WARNING INCOMING: collection consolidation, Paul Edlefsen
    - Re: WARNING INCOMING: collection consolidation, Ewan Birney
    - Re: WARNING INCOMING: collection consolidation, Paul Edlefsen
    - Re: WARNING INCOMING: collection consolidation, Hilmar Lapp
    - Re: WARNING INCOMING: collection consolidation, Paul Edlefsen
    - Re: WARNING INCOMING: collection consolidation, Hilmar Lapp
    - Re: WARNING INCOMING: collection consolidation, Paul Edlefsen
    - Re: WARNING INCOMING: collection consolidation, Lincoln Stein
    - Re: WARNING INCOMING: collection consolidation, Hilmar Lapp
    - Re: WARNING INCOMING: collection consolidation, Lincoln Stein
- Re: Bio::Ontology overhaul, Chris Mungall
  - Re: Bio::Ontology overhaul, Hilmar Lapp
    - Re: Bio::Ontology overhaul, Ewan Birney
    - Re: Bio::Ontology overhaul, Paul Edlefsen
    - Re: Bio::Ontology overhaul, Hilmar Lapp
    - Re: Bio::Ontology overhaul, Chris Mungall
    - Re: Bio::Ontology overhaul, Aaron J Mackey
    - Re: Bio::Ontology overhaul, Ewan Birney
    - Re: Bio::Ontology overhaul, Aaron J Mackey
    - Re: Bio::Ontology overhaul, Hilmar Lapp
    - Re: Bio::Ontology overhaul, Hilmar Lapp
  - Re: Bio::Ontology overhaul, Lincoln Stein
plenty of tests fail on the main trunk, Hilmar Lapp
- Re: plenty of tests fail on the main trunk, Jason Stajich
- Re: plenty of tests fail on the main trunk, Jason Stajich
  - Re: plenty of tests fail on the main trunk, Hilmar Lapp
- Re: plenty of tests fail on the main trunk, Lincoln Stein
bug #1396: *.PL to *.pod conversion is broken, make bails out, Hilmar Lapp
- RE: bug #1396: *.PL to *.pod conversion is broken, make bailsout, Brian Osborne
  - Re: bug #1396: *.PL to *.pod conversion is broken, make bailsout, Hilmar Lapp
    - RE: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Brian Osborne
    - Re: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Hilmar Lapp
    - RE: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Brian Osborne
    - Re: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Lincoln Stein
    - Re: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Lincoln Stein
    - Re: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Lincoln Stein
    - Re: bug #1396: *.PL to *.pod conversion is broken, makebailsout, Hilmar Lapp
    - SeqIO out of memory, Brian Osborne
    - Re: SeqIO out of memory, Hilmar Lapp
Problems with my first Bioperl Script, Brian Carlson
- Re: Problems with my first Bioperl Script, Aaron J Mackey
- RE: Problems with my first Bioperl Script, Marc Logghe
about the gc% plotting, Magic Fang
- Re: about the gc% plotting, Lincoln Stein
- Re: about the gc% plotting, Lincoln Stein
  - Re: about the gc% plotting, Paul Edlefsen
OBDA Bioperl Documentation, Peter Schattner
- Re: OBDA Bioperl Documentation, Lincoln Stein
Is dev.open-bio.org down?, Paul Edlefsen
- Re: Is dev.open-bio.org down?, Lincoln Stein
another use of Perl for biology, Guillaume Rousse
- Re: another use of Perl for biology, Heikki Lehvaslaiho
  - Re: another use of Perl for biology, Guillaume Rousse
scripts, Brian Osborne
- Re: scripts, Heikki Lehvaslaiho
- Re: scripts, Lincoln Stein
bpindex/bpfetch work for me:, Ewan Birney
- RE: bpindex/bpfetch work for me:, Brian Osborne
  - RE: bpindex/bpfetch work for me:, Ewan Birney
- RE: bpindex/bpfetch work for me:, Wiepert, Mathieu
Schedule for 1.2.1, Ewan Birney
- RE: Schedule for 1.2.1, Brian Osborne
- Re: Schedule for 1.2.1, Hilmar Lapp
  - RE: Re: Schedule for 1.2.1, Brian Osborne
best way to map ESTs to genomic seq: blastn?, Charles Hauser
- Re: best way to map ESTs to genomic seq: blastn?, Lincoln Stein
- RE: best way to map ESTs to genomic seq: blastn?, Leonardo Marino-Ramirez
- Re: best way to map ESTs to genomic seq: blastn?, Qunfeng Dong
Error in tempfile() using /tmp/XXXXXXXXXX: Could not create temp /usr/local/lib/perl5/site_perl/5.8.0/Bio/Root/IO.pm line 473, Samuel Andersson
SearchIO::hmmer - Missing last hit, James Wasmuth
if there are other docs for bioperl graphics, Magic Fang
- Re: if there are other docs for bioperl graphics, Elia Stupka
Group Leader Positions in Singapore, Temasek Life Sciences Laboratory, Elia Stupka
perl api for xml database, John Merrells
about fgenesh result manipunation, Magic Fang
Where is bioperl-db for latest bioperl?, Gong Wuming
tracking down error in SeqFeature Collection subroutine, Andy Nunberg
- Re: tracking down error in SeqFeature Collection subroutine, Robson Francisco de Souza
How access HSP fields?, Ivan Sendin
- RE: How access HSP fields?, nkuipers
FASTA alignment encoding, William R. Pearson
Proposed name change for 1.3 (1.4), Ewan Birney
- Re: Proposed name change for 1.3 (1.4), Paul Edlefsen
  - Re: Proposed name change for 1.3 (1.4), Hilmar Lapp
    - Re: Proposed name change for 1.3 (1.4), Paul Edlefsen
    - Re: Proposed name change for 1.3 (1.4), Hilmar Lapp
    - Re: Proposed name change for 1.3 (1.4), Ewan Birney
    - Re: Proposed name change for 1.3 (1.4), Hilmar Lapp
    - Re: Proposed name change for 1.3 (1.4), Heikki Lehvaslaiho
    - Re: Proposed name change for 1.3 (1.4), Ewan Birney
    - Re: Proposed name change for 1.3 (1.4), Hilmar Lapp
    - Re: Proposed name change for 1.3 (1.4), Ewan Birney
    - Re: Proposed name change for 1.3 (1.4), Aaron J Mackey
    - Re: Proposed name change for 1.3 (1.4), Hilmar Lapp
validate_gff_via_ontology.pl, Chris Mungall
Where is the Latest Bioperl-db ?, Gong Wuming
- Re: Where is the Latest Bioperl-db ?, Hilmar Lapp
cpu time contribution, Major Chai Mee Joon MajorLinux
RepeatMask Files Saving, kaboroev
- Re: RepeatMask Files Saving, Shawn Hoon
SeqIO; writing to custom out format?, Charles Hauser
- Re: SeqIO; writing to custom out format?, Brian Osborne
  - Re: SeqIO; writing to custom out format?, Charles Hauser
    - RE: SeqIO; writing to custom out format?, Brian Osborne
    - Re: SeqIO; writing to custom out format?, Hilmar Lapp
- Re: SeqIO; writing to custom out format?, Jason Stajich
- RE: SeqIO; writing to custom out format?, Cook, Malcolm
Bio::SeqIO::genbank seems to munge SOURCE and ORGANISM lines, Geoff Purdy
- Re: Bio::SeqIO::genbank seems to munge SOURCE and ORGANISM lines, Hilmar Lapp
  - Re: Bio::SeqIO::genbank seems to munge SOURCE and ORGANISM lines, Geoff Purdy
    - Re: Bio::SeqIO::genbank seems to munge SOURCE and ORGANISM lines, Hilmar Lapp
SSEARCH Module needed? no. 2, Konrad Foerstner
- Re: SSEARCH Module needed? no. 2:, Jason Stajich
  - Re: SSEARCH Module needed? no. 2:, Shawn Hoon
  - Re: SSEARCH Module needed? no. 2:, Konrad Foerstner
- SSEARCH Module needed? no. 2, Konrad Foerstner
blastall parser, Xiequn Xu
Bio::Pedigree modules, Man-Suen Chan
- Re: Bio::Pedigree modules, Jason Stajich
ftp site down?, Kurt Marek
- Re: ftp site down?, Jason Stajich
- Re: ftp site down?, Chris Dagdigian
Quickest way to get sequence...., Brian Carlson
Re: [SO-devel] GFF3 preliminary, Genetics
How to become a bioperl hacker... (and come to hackathons), Ewan Birney
Sequence Features... (hello from Singapore...), Ewan Birney
- Re: Sequence Features... (hello from Singapore...), Paul Edlefsen
- Re: Sequence Features... (hello from Singapore...), Paul Edlefsen
  - Re: Sequence Features... (hello from Singapore...), Hilmar Lapp
  - Re: Sequence Features... (hello from Singapore...), Ewan Birney
    - Re: Sequence Features... (hello from Singapore...), Paul Edlefsen
Trouble in executing StandAloneBlast on Win2000, Takeshi Sasayama
- Re: Trouble in executing StandAloneBlast on Win2000, Brian Osborne
  - Re: Trouble in executing StandAloneBlast on Win2000, Takeshi Sasayama
    - Re: Trouble in executing StandAloneBlast on Win2000, Jason Stajich
    - Re: Trouble in executing StandAloneBlast on Win2000, Takeshi Sasayama
    - Re: Trouble in executing StandAloneBlast on Win2000, Ewan Birney
tables missing in mysql biosql instance, David Guzman
- Re: tables missing in mysql biosql instance, Hilmar Lapp
Old BPlite::HSP methods, Michael Muratet
- Re: Old BPlite::HSP methods, Ian Korf
More on ACC NR -> Species name, Henrik Nilsson
- Re: More on ACC NR -> Species name, Hilmar Lapp
- Re: More on ACC NR -> Species name, James Wasmuth
- Re: More on ACC NR -> Species name, Ewan Birney
- RE: More on ACC NR -> Species name, Wiepert, Mathieu
Help with Makefile.PL, Turner, Geoff
- RE: Help with Makefile.PL, simon andrews (BI)
BioSQL release candidate, Hilmar Lapp
pI and MW of seqs, Aaron J Mackey
- Re: pI and MW of seqs, Rob Edwards
- Re: pI and MW of seqs, Brian Osborne
- Re: pI and MW of seqs, Hilmar Lapp
GFF3 preliminary, Lincoln Stein
- Re: [SO-devel] GFF3 preliminary, Mark Yandell
  - Re: [SO-devel] GFF3 preliminary, Ewan Birney
    - Re: [SO-devel] GFF3 preliminary, Chris Mungall
  - Re: [SO-devel] GFF3 preliminary, Lincoln Stein
- Re: GFF3 preliminary, Ian Korf
  - Re: GFF3 preliminary, Jim Kent
    - Re: GFF3 preliminary, Lincoln Stein
  - Re: [SO-devel] Re: GFF3 preliminary, Lincoln Stein
    - Re: [SO-devel] Re: GFF3 preliminary, Richard Durbin
    - Re: [SO-devel] Re: GFF3 preliminary, Jim Kent
- Re: GFF3 preliminary, Jim Kent
  - Re: [SO-devel] Re: GFF3 preliminary, Lincoln Stein
- Re: GFF3 preliminary, Richard Durbin
  - Re: Re: GFF3 preliminary, Aaron J Mackey
  - Re: [SO-devel] Re: GFF3 preliminary, Chris Mungall
    - Re: [SO-devel] Re: GFF3 preliminary, Richard Durbin
    - Re: [SO-devel] Re: GFF3 preliminary, Chris Mungall
    - Re: [SO-devel] Re: GFF3 preliminary, Richard Durbin
script reorganising in bioperl-db, Ewan Birney
counting nucleotides in a sequence, parvesh
- Re: counting nucleotides in a sequence, Jason Stajich
  - dev cvs, Xiao Juguang
  - Re: counting nucleotides in a sequence, Alan Christoffels
    - Re: counting nucleotides in a sequence, Jason Stajich
- Re: counting nucleotides in a sequence, Brian Osborne
- Re: counting nucleotides in a sequence, Mark Wagner
- RE: Re: counting nucleotides in a sequence, nkuipers
problems loading swissprot under mysql inmandrake 9.0, David Guzman
- Re: problems loading swissprot under mysql inmandrake 9.0, Hilmar Lapp
boxes in heterogenious segments, Marco Aurelio Valtas Cunha
- Again, boxes in heterogenious segments, Marco Aurelio Valtas Cunha
  - Re: Again, boxes in heterogenious segments, Lincoln Stein
ACC -> Organism question, Henrik Nilsson
- Re: ACC -> Organism question, Jason Stajich
- RE: ACC -> Organism question, Wiepert, Mathieu
Bio::DB::GenBank problem with get_Seq_by_acc, Prachi Shah
[BioPython] Urgent O|B|F system news: our primary developer repository has been relocated, Chris Dagdigian
SSEARCH Module needed?, Konrad Foerstner
local dialign module, Mark Wagner
- Re: local dialign module, Jason Stajich
  - Re: local dialign module, Mark Wagner
bl2seq, andersen
- Re: bl2seq, Jason Stajich
- Official bio hackathon website, Xiao Juguang
  - Re: Official bio hackathon website, Nathan Torkington
  - Message not available
    - Re: Official bio hackathon website, Jason Stajich
  - Re: Official bio hackathon website, Elia Stupka
Remote BLAST and BLAST Word Size, Henrik Nilsson
- Re: Remote BLAST and BLAST Word Size, Jason Stajich
Assessing the features of MSA in fasta format, Vladimir Babenko
Problems loading scf files, Brad Powers
Question about Bio::DB vs Bio::Index ..., William S. Morgart
- Re: Question about Bio::DB vs Bio::Index ..., Jason Stajich
Re: [Bioperl-guts-l] BioPerl::RefSeq usage, Jason Stajich
Using IO::Filter::gzip with Bio::SeqIO, Michael Muratet
- Re: Using IO::Filter::gzip with Bio::SeqIO, Ewan Birney
  - Re: Using IO::Filter::gzip with Bio::SeqIO, Tony Cox
    - Re: Using IO::Filter::gzip with Bio::SeqIO, Ewan Birney
fasta-formatted alignment used in SearchIO, Vladimir Babenko
- Re: fasta-formatted alignment used in SearchIO, Jason Stajich
RemoteBlast other than NCBI., Prachi Shah
- Re: RemoteBlast other than NCBI., Jason Stajich
1.2.1 next week, Ewan Birney
- Re: 1.2.1 next week, Hilmar Lapp
- Re: 1.2.1 next week, Jason Stajich
resolved: where is Bio::Tools::Run::WrapperBase.pm?, Dan Kortschak
where is Bio::Tools::Run::WrapperBase.pm?, Dan Kortschak
- Re: where is Bio::Tools::Run::WrapperBase.pm?, Jason Stajich
  - StandAloneBlast returning Bio::SearchIO::blast was: where is Bio::Tools::Run::WrapperBase.pm?, Dan Kortschak
    - Re: StandAloneBlast returning Bio::SearchIO::blast was: where is Bio::Tools::Run::WrapperBase.pm?, Ewan Birney
    - Re: StandAloneBlast returning Bio::SearchIO::blast was: where is Bio::Tools::Run::WrapperBase.pm?, Ewan Birney
    - Using Bio::SearchIO was: StandAloneBlast returning Bio::SearchIO::blast, Dan Kortschak
    - Re: Using Bio::SearchIO was: StandAloneBlast returning Bio::SearchIO::blast, Jason Stajich
    - RE: StandAloneBlast returning Bio::SearchIO::blast was: whereis Bio::Tools::Run::WrapperBase.pm?, Brian Osborne
Fw: about the remote blast problem, Magic Fang
- RE: Fw: about the remote blast problem, Wiepert, Mathieu
Need help updating Bio::Graphics regression tests, Lincoln Stein
BioSQL db on Windows 2000/mySQL, Wiepert, Mathieu
- RE: BioSQL db on Windows 2000/mySQL, Brian Osborne
Speculative changes to Bio::Graphics, Lincoln Stein
limit on accessing NCBI/GenBank, Prachi Shah
- Re: limit on accessing NCBI/GenBank, Jason Stajich
  - RE: limit on accessing NCBI/GenBank, Brian Osborne
- Message not available
  - Re: limit on accessing NCBI/GenBank, Nirav Merchant
- Re: limit on accessing NCBI/GenBank, Ewan Birney
  - Re: limit on accessing NCBI/GenBank, Lincoln Stein
Blast server: checking seq prior to job submission, Charles Hauser
- Re: Blast server: checking seq prior to job submission, Hilmar Lapp
project ideas, Richard Adams
- RE: project ideas, Brian Osborne
  - Re: project ideas, Hilmar Lapp
- Re: project ideas, Jason Stajich
genbank contig parses, Richard Adams
- Re: genbank contig parses, Hilmar Lapp
- genbank contig parses, Richard Adams
Bio::Coordinate mappers, Heikki Lehvaslaiho
Newbie StandAloneBlast - too many files?, Keith Anthony Boroevich
- RE: Newbie StandAloneBlast - too many files?, Brian Osborne
- Re: Newbie StandAloneBlast - too many files?, Jason Stajich
  - Re: Newbie StandAloneBlast - too many files?, Keith Boroevich
    - Re: Newbie StandAloneBlast - too many files?, Jason Stajich
t/CoordinateMapper fails badly, Hilmar Lapp
- Re: t/CoordinateMapper fails badly, Ewan Birney
LocusLink Parsing Problem, Paul Boutros
- Re: LocusLink Parsing Problem, Hilmar Lapp
can't retrive certain sequences from remote db, Alice Lu
- Re: can't retrive certain sequences from remote db, Jason Stajich
- RE: can't retrive certain sequences from remote db, Brian Osborne
- RE: can't retrive certain sequences from remote db, Alice Lu
Re: [Bioperl-guts-l] any module (class) to run or parse the results of RPS-BLAST?, Jason Stajich
- Thanks and other questions, Sally Li
MEME parsing, Stefan Kirov
parsing of keywords field in Bio::SeqIO::genbank, Geoff Purdy
- Re: parsing of keywords field in Bio::SeqIO::genbank, Hilmar Lapp
  - Re: parsing of keywords field in Bio::SeqIO::genbank, Geoff Purdy
[Bioperl-guts-l] any module (class) to run or parse the results of RPS-BLAST? (fwd), Jason Stajich
Newbie Question about Bio::DB::GenBank, Joseph Urban
- RE: Newbie Question about Bio::DB::GenBank, nkuipers
  - temp file not removed after StandAloneBlast?, Remo Sanges
    - Re: temp file not removed after StandAloneBlast?, Ewan Birney
Re: changing subfeature colors with Bio::Graphics and Bio::SeqFeature, Lincoln Stein
Bio::Graphics, sorry to sound redundant :(, William Boileau
Re: Proposed GFF version 3, Suzanna Lewis
- Re: Re: Proposed GFF version 3, Ewan Birney
- Re: Proposed GFF version 3, Richard Durbin
  - Re: Proposed GFF version 3, Jim Kent
  - Re: Proposed GFF version 3, Lincoln Stein
    - Re: Proposed GFF version 3, Richard Durbin
    - Re: Proposed GFF version 3, Lincoln Stein
    - Re: Proposed GFF version 3, Richard Durbin
    - Re: Proposed GFF version 3, Jim Kent
    - Re: Proposed GFF version 3, Richard Durbin
    - Re: Proposed GFF version 3, Jim Kent
    - RE: Proposed GFF version 3, Tony Cox
HTML writers, nkuipers
- RE: HTML writers, Brian Osborne
- RE: HTML writers, nkuipers
combining a CGI filehandle with SeqIO, nkuipers
- RE: combining a CGI filehandle with SeqIO, Jamie Hatfield \(AGCoL\)
- Re: combining a CGI filehandle with SeqIO, Hilmar Lapp
StandAloneBlast and blast->to_html etc, Dan Kortschak
InterPro parser, Hilmar Lapp
struggling with Bio::Index::GenBank, Neil Saunders
- RE: struggling with Bio::Index::GenBank, Brian Osborne
  - Bio::Graphics::Glyph extending_arrow, William Boileau
    - Re: Bio::Graphics::Glyph extending_arrow, Lincoln Stein
bioperl indices, miguel valvano
- Re: bioperl indices, Jason Stajich
removing net dependancies, Jason Stajich
IO::String missing, nkuipers
- Re: IO::String missing, Jason Stajich
- Re: IO::String missing, Prachi Shah
  - Re: IO::String missing, Jason Stajich
    - Re: IO::String missing, Prachi Shah
- RE: IO::String missing, Marc Logghe
urgent, allen obada
The large module list chestnut again, Keith James
- Re: The large module list chestnut again, Jason Stajich
  - Re: The large module list chestnut again, Ewan Birney
  - Re: The large module list chestnut again, Keith James
Please help with Bio::Graphics, Lucas Quincy Ton
- Re: Please help with Bio::Graphics, Jason Stajich
  - Re: Please help with Bio::Graphics, Lincoln Stein
problem with bioperl on UNIX, Prachi Shah
- RE: problem with bioperl on UNIX, simon andrews (BI)
  - RE: problem with bioperl on UNIX, Prachi Shah
    - RE: problem with bioperl on UNIX, Jason Stajich
    - RE: problem with bioperl on UNIX, Prachi Shah
    - RE: problem with bioperl on UNIX, Jason Stajich
    - RE: problem with bioperl on UNIX, Prachi Shah
    - Re: problem with bioperl on UNIX, Hilmar Lapp
    - Re: still problem with bioperl on UNIX, Prachi Shah
    - Re: problem with bioperl on UNIX, Hilmar Lapp
Bio::Graphics heterogeneous_segments problem., Marco Aurelio Valtas Cunha
- Re: Bio::Graphics heterogeneous_segments problem., Lincoln Stein
- Re: Bio::Graphics heterogeneous_segments problem., Lincoln Stein
- Re: Bio::Graphics heterogeneous_segments problem., Lincoln Stein
  - Re: Bio::Graphics heterogeneous_segments problem., Marco Aurelio Valtas Cunha
EMBOSSApplication warnings?, Wiepert, Mathieu
- Re: EMBOSSApplication warnings?, Heikki Lehvaslaiho
- Re: EMBOSSApplication warnings?, Hilmar Lapp
Bio::Graphics and HTML, William Boileau
- Re: Bio::Graphics and HTML, Bernhard Schmalhofer
Bio::DB::GenPept server error, Neil Saunders
- Re: Bio::DB::GenPept server error, Ewan Birney
Re: WARNING INCOMING: collection consolidation, Hilmar Lapp
XML parsers, Hilmar Lapp
- Re: XML parsers, Robin Berjon
  - Re: XML parsers, Hilmar Lapp
bioperl.pod and biodesign.pod, Hilmar Lapp
- RE: bioperl.pod and biodesign.pod, Brian Osborne
  - Re: bioperl.pod and biodesign.pod, Hilmar Lapp
  - RE: bioperl.pod and biodesign.pod, Allen Day
StandAlone BLAST error, Arvind Jayasundar
- Re: StandAlone BLAST error, Tobias Thierer
  - Re: StandAlone BLAST error, Dave Arenillas
Re: gene ontology, Hilmar Lapp
- Re: gene ontology, Chris Mungall
Re: problem with Bio::DB::Query::GenBank, Hilmar Lapp
- Re: problem with Bio::DB::Query::GenBank, Aaron J Mackey
RE: Errors using Bio::Assembly, anunberg
- RE: Errors using Bio::Assembly, Robson Francisco de Souza
- RE: Errors using Bio::Assembly, Andy Nunberg
Parsing GenBank files w/o Sequences, Peter Chines
- Re: Parsing GenBank files w/o Sequences, Hilmar Lapp
- Re: Parsing GenBank files w/o Sequences, Hilmar Lapp
  - Re: Parsing GenBank files w/o Sequences, Ewan Birney
Mlagan/lagan bioperl object, Stephen Montgomery
- Re: Mlagan/lagan bioperl object, Ewan Birney
- Re: Mlagan/lagan bioperl object, Shawn Hoon
  - Re: Mlagan/lagan bioperl object, Ewan Birney
    - Re: Mlagan/lagan bioperl object, Elia Stupka
    - Re: Mlagan/lagan bioperl object, Ewan Birney
    - Re: Mlagan/lagan bioperl object, Shawn Hoon
    - Re: Mlagan/lagan bioperl object, Stephen Montgomery