June 2005 Archives by date

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Starting: Wed Jun 1 07:43:03 EST 2005
Ending: Thu Jun 30 17:55:53 EST 2005
Messages: 247

• [Bioperl-l] Bio::SearchIO::hmmer   Sean O'Keeffe
• [Bioperl-l] Bio::SearchIO::hmmer   Sean O'Keeffe
• [Bioperl-l] bioperl-ext1.4 installation problem (Sean MacEachern)   Sean.Maceachern at dpi.vic.gov.au
• [Bioperl-l] please help me to check why this perl script does notwork!   Richard Adams
• [Bioperl-l] Removing SeqFeatures   michael watson (IAH-C)
• [Bioperl-l] Removing SeqFeatures   Marc Logghe
• [Bioperl-l] Removing SeqFeatures   Cook, Malcolm
• [Bioperl-l] Entrez Gene parser questions   Law, Annie
• [Bioperl-l] Entrez Gene parser questions   Mingyi Liu
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] AlignIO and bl2seq   Ryan Golhar
• [Bioperl-l] getting t_coffee to run with bioperl in linux first time   Micheleen Harris
• [Bioperl-l] getting t_coffee to run with bioperl in linux first time   Tim Erwin
• [Bioperl-l] How to Install   NITIN kumar
• [Bioperl-l] Bio::Graphics quickie!   michael watson (IAH-C)
• [Bioperl-l] How to Install   Brian Osborne
• [Bioperl-l] Reroot Tree ?   Jason Stajich
• [Bioperl-l] New GO file format   Amir Karger
• [Bioperl-l] Bio::Graphics quickie!   Lincoln Stein
• [Bioperl-l] bioperl-ext1.4 installation problem (Sean MacEachern)   Aaron J. Mackey
• [Bioperl-l] A problem when converting Genbank->GFF->png using script   Jie Zhou
• [Bioperl-l] New GO file format   Hilmar Lapp
• [Bioperl-l] staden package building problem   xuying
• [Bioperl-l] 1-year fellowship opportunity at NIH for youngish BioPerl-er   Jonathan Epstein
• [Bioperl-l] staden package building problem   Aaron J. Mackey
• [Bioperl-l] AlignIO and bl2seq   Jason Stajich
• [Bioperl-l] AlignIO and bl2seq   Ryan Golhar
• [Bioperl-l] how to use bioperl to do Z-scores test   Frank Lee
• [Bioperl-l] how to use bioperl to do Z-scores test   Sean Davis
• [Bioperl-l] how to use bioperl to do Z-scores test   Frank Lee
• [Bioperl-l] how to use bioperl to do Z-scores test   Sean Davis
• [Bioperl-l] About suggestions and volunteer   Shilpa Dixit
• [Bioperl-l] how to use bioperl to do Z-scores test   Sean Davis
• [Bioperl-l] how to use bioperl to do Z-scores test   Frank Lee
• [Bioperl-l] Fwd: BioPerl Blast Tools   Aaron J. Mackey
• [Bioperl-l] Entrez Gene parser questions   Law, Annie
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Mingyi Liu
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Error loading sequence with load_seqdatabase.pl   Duangdaow Kanhasiri
• [Bioperl-l] Bio::SeqIO::entrezgene refseq question   Sean Davis
• [Bioperl-l] Bio::SeqIO::entrezgene refseq question   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Law, Annie
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Law, Annie
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Sean Davis
• [Bioperl-l] Entrez Gene parser questions   Mingyi Liu
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Hilmar Lapp
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Hilmar Lapp
• [Bioperl-l] Error loading sequence with load_seqdatabase.pl   Hilmar Lapp
• [Bioperl-l] Error loading sequence with load_seqdatabase.pl   Hilmar Lapp
• [Bioperl-l] Parsing PDB Files   Saskia Priesel
• [Bioperl-l] Problem in parsing GenBank flatfile   Yoshida Yuichi
• [Bioperl-l] Bioperl Module   Saskia Priesel
• [Bioperl-l] Entrez Gene parser questions   Brian Osborne
• [Bioperl-l] Entrez Gene parser questions   Brian Osborne
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Putative bug in Bio/SearchIO/blast.pm   Jérémy JUST
• [Bioperl-l] Entrez Gene parser questions   Mingyi Liu
• [Bioperl-l] Bio::RangeI::union   Chris Mungall
• [Bioperl-l] Entrez Gene parser questions   Law, Annie
• [Bioperl-l] Entrez Gene parser questions   Stefan Kirov
• [Bioperl-l] Entrez Gene parser questions   Mingyi Liu
• [Bioperl-l] Bio::RangeI::union   Aaron J. Mackey
• [Bioperl-l] Entrez Gene parser questions   Hilmar Lapp
• [Bioperl-l] Bio::RangeI::union   Hilmar Lapp
• [Bioperl-l] Entrez Gene parser questions and next release??   Stefan Kirov
• [Bioperl-l] release date when?   Hilmar Lapp
• [Bioperl-l] Error loading sequence with load_seqdatabase.pl   Duangdaow Kanhasiri
• [Bioperl-l] genbank2gff and how do I use gff3 with Bio::DB::GFF?   Chad Matsalla
• [Bioperl-l] avoiding feature parsing   Danny Rice
• [Bioperl-l] avoiding feature parsing   Marc Logghe
• [Bioperl-l] avoiding feature parsing   Hilmar Lapp
• [Bioperl-l] avoiding feature parsing   Hilmar Lapp
• [Bioperl-l] Bio::RangeI::union   Chris Mungall
• [Bioperl-l] Problem in parsing GenBank flatfile   Brian Osborne
• [Bioperl-l] Bio::RangeI::union   Aaron J. Mackey
• [Bioperl-l] Bio::RangeI::union   Chris Mungall
• [Bioperl-l] Bio::RangeI::union   Chris Mungall
• [Bioperl-l] Bio::RangeI::union   Aaron J. Mackey
• [Bioperl-l] Bio::RangeI::union   Chris Mungall
• [Bioperl-l] patch xyplot.pm negative values Bio::Graphics/GMOD   Albert Vilella
• [Bioperl-l] Putative bug in Bio/SearchIO/blast.pm   Jason Stajich
• [Bioperl-l] Bio::Tools::Primer3.pm bug: code or doc, you decide???   George Hartzell
• [Bioperl-l] Bio::Tools::Primer3.pm bug: code or doc, you decide???   Brian Osborne
• [Bioperl-l] A possible fix for Bio::Tools::Run::Primer3::run().   George Hartzell
• [Bioperl-l] A possible fix for Bio::Tools::Run::Primer3::run().   George Hartzell
• [Bioperl-l] Re: patch xyplot.pm negative values Bio::Graphics/GMOD   Albert Vilella
• [Bioperl-l] pubmed not used in Bio::Annotation::Reference if medline is present   Fernan Aguero
• [Bioperl-l] pubmed not used in Bio::Annotation::Reference if medline is present   Brian Osborne
• [Bioperl-l] pubmed not used in Bio::Annotation::Reference if medline is present   Fernan Aguero
• [Bioperl-l] some notes on entrezgene parser performance   Stefan Kirov
• [Bioperl-l] Bioperl module: Bio::Tools::Run::Alignment::TCoffee   ChaosMK2
• [Bioperl-l] Volunteers to contributions of Perl code   EranEl
• [Bioperl-l] Putative bug in Bio/SearchIO/blast.pm   Jérémy JUST
• [Bioperl-l] Volunteers to contributions of Perl code   Jason Stajich
• [Bioperl-l] how can i get GO terms   Rambabu Gudavalli
• [Bioperl-l] genbank2gff and how do I use gff3 with Bio::DB::GFF?   Chad Matsalla
• [Bioperl-l] Bio::Tools::Primer3.pm bug: code or doc, you decide???   George Hartzell
• [Bioperl-l] Re: patch xyplot.pm negative values Bio::Graphics/GMOD   Lincoln Stein
• [Bioperl-l] Re: memory error while loading SwissProt into Oracle using bioperl-db   Hilmar Lapp
• [Bioperl-l] genbank2gff and how do I use gff3 with Bio::DB::GFF?   Scott Cain
• [Bioperl-l] extract info from .game.xml   Tuan A. Tran
• [Bioperl-l] genbank2gff and how do I use gff3 with Bio::DB::GFF?   Chad Matsalla
• [Bioperl-l] Module: Bio::Structure::IO   Saskia Priesel
• [Bioperl-l] locus_tag of features in Bio::SeqFeature->gff_string   michael watson (IAH-C)
• [Bioperl-l] locus_tag of features in Bio::SeqFeature->gff_string   Jason Stajich
• [Bioperl-l] Fwd: query   Jason Stajich
• [Bioperl-l] aligned sequence from hmmer output   Andrew Su
• [Bioperl-l] aligned sequence from hmmer output   Jason Stajich
• [Bioperl-l] Bio::Graphics.pm example/documentation fix   George Hartzell
• [Bioperl-l] Course in informatics for biology 2006 at Institut Pasteur   Katja Schuerer
• [Bioperl-l] pfam query   Juan Carlos Sanchez Ferrero
• [Bioperl-l] scales in xyplot.pm negative values Bio::Graphics for GBrowse   Albert Vilella
• [Bioperl-l] pfam query   Sean Davis
• [Bioperl-l] pfam query   Juan Carlos Sanchez Ferrero
• [Bioperl-l] parsing blast output   Tuan A. Tran
• [Bioperl-l] parsing blast output   Irshad Khan
• [Bioperl-l] parsing blast output   Jason Stajich
• [Bioperl-l] parsing blast output   Irshad Khan
• [Bioperl-l] about Bio::DB::GFF   Tuan A. Tran
• [Bioperl-l] Drawing sequences in the "other" direction   Lincoln Stein
• [Bioperl-l] Drawing sequences in the "other" direction   michael watson (IAH-C)
• [Bioperl-l] Drawing sequences in the "other" direction   hz5 at njit.edu
• [Bioperl-l] parsing blast output   Will Spooner
• [Bioperl-l] how to get entries from swiss-prot   Baoqiang Cao
• [Bioperl-l] Bio::SearchIO::hmmer   Jason Stajich
• [Bioperl-l] parsing blast output   Jason Stajich
• [Bioperl-l] Drawing sequences in the "other" direction   hz5 at njit.edu
• [Bioperl-l] Announce: SeqHound access modules   Heikki Lehvaslaiho
• [Bioperl-l] how to get entries from swiss-prot   michael watson (IAH-C)
• [Bioperl-l] how to get entries from swiss-prot   Brian Osborne
• [Bioperl-l] how to get entries from swiss-prot   michael watson (IAH-C)
• [Bioperl-l] how to get entries from swiss-prot   Brian Osborne
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   Michael Spitzer
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   michael watson (IAH-C)
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   Jason Stajich
• [Bioperl-l] cannot find path to blastall   hafiz yusof
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   Rob Edwards
• [Bioperl-l] cannot find path to blastall   Laurent DOUCHY
• [Bioperl-l] cannot find path to blastall   hafiz yusof
• [Bioperl-l] cannot find path to blastall   Tim Erwin
• [Bioperl-l] cannot find path to blastall   Laurent DOUCHY
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   Nathan Haigh
• [Bioperl-l] Which version of standalone BLAST binary to use?   Andrew Leung
• [Bioperl-l] Pattern search with gap   khoueiry
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   Jason Stajich
• [Bioperl-l] cannot find path to blastall   Jason Stajich
• [Bioperl-l] More unresolved issues with Bio::AnnotatableI   Aaron J. Mackey
• [Bioperl-l] Pattern search with gap   Andrew Walsh
• [Bioperl-l] Pattern search with gap   Tamas Horvath
• [Bioperl-l] Pattern search with gap   Tamas Horvath
• [Bioperl-l] Looking for an Application to visualize Promoter Prediction results   Patrick Bennour
• [Bioperl-l] Pattern search with gap   khoueiry
• [Bioperl-l] mystery   Tamas Horvath
• [Bioperl-l] mystery   Josh Lauricha
• [Bioperl-l] mystery   Tamas Horvath
• [Bioperl-l] Read alignment produced by blast's option -m (4|6)   Raoul Jean Pierre Bonnal
• [Bioperl-l] CORBA::ORBit on Win32 ActivePerl v5.8.4   Rutger Vos
• [Bioperl-l] How to convert GFF to GAME XML   Anand Venkatraman
• [Bioperl-l] Drawing sequences in the "other" direction   Lincoln Stein
• [Bioperl-l] scales in xyplot.pm negative values Bio::Graphics for GBrowse   Lincoln Stein
• [Bioperl-l] Problems with Bio/Graphics/Feature.pm   Lincoln Stein
• [Bioperl-l] FASTA.pm issue   sumit middha
• [Bioperl-l] Which version of standalone BLAST binary to use?   Tim Erwin
• [Bioperl-l] Re: More unresolved issues with Bio::AnnotatableI   Allen Day
• [Bioperl-l] Re: More unresolved issues with Bio::AnnotatableI   Aaron J. Mackey
• [Bioperl-l] Re: More unresolved issues with Bio::AnnotatableI   Hilmar Lapp
• [Bioperl-l] GEO SOFT format parsing   Sean Davis
• [Bioperl-l] FASTA.pm issue   sumit middha
• [Bioperl-l] Getting nucleotide seq from protein accession   Kat Hull
• [Bioperl-l] FASTA.pm issue   Brian Osborne
• [Bioperl-l] help with parsing meme output   Nandita Mullapudi
• [Bioperl-l] help with parsing meme output   James Wasmuth
• [Bioperl-l] help with parsing meme output   James Wasmuth
• [Bioperl-l] Getting nucleotide seq from protein accession   Stefan Kirov
• [Bioperl-l] help with parsing meme output   Stefan Kirov
• [Bioperl-l] help with parsing meme output   Stefan Kirov
• [Bioperl-l] help with parsing meme output   James Wasmuth
• [Bioperl-l] help with parsing meme output   Nandita Mullapudi
• [Bioperl-l] help with parsing meme output   James Wasmuth
• [Bioperl-l] help with parsing meme output   Stefan Kirov
• [Bioperl-l] help with parsing meme output   Nandita Mullapudi
• [Bioperl-l] help with parsing meme output   Stefan Kirov
• [Bioperl-l] Fwd: Bio::DB::BioDB   Heikki Lehvaslaiho
• [Bioperl-l] Getting nucleotide seq from protein accession   Richard Adams
• [Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?   Michael Spitzer
• [Bioperl-l] problems during installation   Leonardo Kenji Shikida
• [Bioperl-l] Getting nucleotide seq from protein accession   Stefan Kirov
• [Bioperl-l] Bio::DB::CUTG behaving weird   Stefan Kirov
• [Bioperl-l] Fwd: Bio::DB::BioDB   Hilmar Lapp
• [Bioperl-l] Fwd: Re: Bio::DB::BioDB   lehvasla at ebi.ac.uk
• [Bioperl-l] Fwd: Re: Bio::DB::BioDB   Hilmar Lapp
• [Bioperl-l] pubmed article download and storing in object   Zack Napalm
• [Bioperl-l] Getting nucleotide seq from protein accession   Kat Hull
• [Bioperl-l] problems during installation   Frank Lee
• [Bioperl-l] problems during installation   Leonardo Kenji Shikida
• [Bioperl-l] problems during installation   Chris Dagdigian
• [Bioperl-l] Bio::DB::CUTG behaving weird   Richard Adams
• [Bioperl-l] Bio::DB::CUTG behaving weird   Stefan Kirov
• [Bioperl-l] convert Refseq ID to another ID can be used for Gene ontology?   Frank Lee
• [Bioperl-l] Getting nucleotide seq from protein accession   Stefan Kirov
• [Bioperl-l] Getting nucleotide seq from protein accession   Kat Hull
• [Bioperl-l] Getting nucleotide seq from protein accession   Hilmar Lapp
• [Bioperl-l] Bio::DB::CUTG behaving weird   Stefan Kirov
• [Bioperl-l] pubmed article download and storing in object   Allen Day
• [Bioperl-l] HOWTO: fix the broken left margin in all HOWTO pdfs from http://bioperl.org/HOWTOs/   Cook, Malcolm
• [Bioperl-l] why string overload is bad   Hilmar Lapp
• [Bioperl-l] HOWTO: fix the broken left margin in all HOWTO pdfs from http://bioperl.org/HOWTOs/   Brian Osborne
• [Bioperl-l] pubmed article download and storing in object   Zack Napalm
• [Bioperl-l] why string overload is bad   Stefan Kirov
• [Bioperl-l] why string overload is bad   Ewan Birney
• [Bioperl-l] pubmed article download and storing in object   Zack Napalm
• [Bioperl-l] Sequence trace as PNG image   michael watson (IAH-C)
• [Bioperl-l] GFF3 and Gbrowse   Andrew Nunberg
• [Bioperl-l] pubmed article download and storing in object   Brian Osborne
• [Bioperl-l] GFF3 and Gbrowse   Lincoln Stein
• [Bioperl-l] GFF3 and Gbrowse   Scott Cain
• [Bioperl-l] HOWTO: fix the broken left margin in all HOWTO pdfs from http://bioperl.org/HOWTOs/   Cook, Malcolm
• [Bioperl-l] GFF3 and Gbrowse   Scott Cain
• [Bioperl-l] GFF3 and Gbrowse   Lincoln Stein
• [Bioperl-l] GFF3 and Gbrowse   Scott Cain
• [Bioperl-l] nhx.pm does not print bootstrap values   rfsouza at cecm.usp.br
• [Bioperl-l] how-to-remove-redundant-lines   vijayaraj nagarajan
• [Bioperl-l] how-to-remove-redundant-lines   Heikki Lehvaslaiho
• [Bioperl-l] how-to-remove-redundant-lines   Heikki Lehvaslaiho
• [Bioperl-l] how-to-remove-redundant-lines   Terry Jones
• [Bioperl-l] how-to-remove-redundant-lines   Terry Jones
• [Bioperl-l] how-to-remove-redundant-lines   Terry Jones
• [Bioperl-l] Alternate hit sorting for Bio::Search::Result objects   Cook, Malcolm
• [Bioperl-l] Help on module for the analysis of sequence alignment   Julio Fernández Banet
• [Bioperl-l] how-to-remove-redundant-lines-IT WORKED-TERRY   vijayaraj nagarajan
• [Bioperl-l] More unresolved issues with Bio::AnnotatableI   Hilmar Lapp
• [Bioperl-l] Help on module for the analysis of sequence alignment   Heikki Lehvaslaiho
• [Bioperl-l] Problem of installing bioperl-run-1.4   =?big5?B?WXUtSHN1YW4gTGluKKpMpnSwYSk=?=
• [Bioperl-l] Problem of installing bioperl-run-1.4   Jason Stajich
• [Bioperl-l] nhx.pm does not print bootstrap values   Jason Stajich
• [Bioperl-l] broken term relationships from dagedit files fixed   Hilmar Lapp
• [Bioperl-l] TreeIO::nhx doesn't write internal node labels   Georgii Bazykin
• [Bioperl-l] Bio::SeqIO::game question   Stefan Kirov
• [Bioperl-l] BLAST scores   Josh Lauricha
• [Bioperl-l] BLAST scores   Joseph Bedell
• [Bioperl-l] BLAST scores   Josh Lauricha

Last message date: Thu Jun 30 17:55:53 EST 2005
Archived on: Fri Jul 1 14:28:35 EST 2005

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