February 2006 Archives by thread

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Starting: Thu Feb 2 07:26:09 UTC 2006
Ending: Wed Mar 1 02:41:08 UTC 2006
Messages: 278

• [Bioperl-l] Sorry, failure in post on the net, so still via email   CHANDAN SINGH
  • [Bioperl-l] Sorry, failure in post on the net, so still via email   Brian Osborne
  • [Bioperl-l] Calpha to Co-ordinates Program   Shameer Khadar
    • [Bioperl-l] Need a slogan for OBF   Shameer Khadar
• [Bioperl-l] RemoteBlast.pm version 1.28   Nagesh Chakka
  • [Bioperl-l] RemoteBlast.pm version 1.28   Chris Fields
    • [Bioperl-l] more question regarding RemoteBlast.pm version 1.28   Guojun Yang
      • [Bioperl-l] more question regarding RemoteBlast.pm version 1.28   Chris Fields
• [Bioperl-l] Documentation in the Bioperl package   Brian Osborne
  • [Bioperl-l] Documentation in the Bioperl package   Hilmar Lapp
    • [Bioperl-l] Documentation in the Bioperl package   Brian Osborne
• [Bioperl-l] Gibbs sampling algorithm?   Sam Al-Droubi
  • [Bioperl-l] Gibbs sampling algorithm?   Chris Fields
• [Bioperl-l] proposed additions to Tree and cladogram   Georgii A Bazykin
• [Bioperl-l] RemoteBlast.pm getting RID requests-make/alter the method?   Bradley J. S. C. Olson
  • [Bioperl-l] RemoteBlast.pm getting RID requests-make/alter themethod?   Chris Fields
  • [Bioperl-l] RemoteBlast.pm getting RID requests-make/alter the method?   Roger Hall
• [Bioperl-l] standalone blast composition based statistics parameter   Hubert Prielinger
  • [Bioperl-l] standalone blast composition based statistics parameter   Torsten Seemann
  • [Bioperl-l] standalone blast composition based statistics parameter   Fernan Aguero
    • [Bioperl-l] standalone blast composition based statistics parameter   Hubert Prielinger
      • [Bioperl-l] standalone blast composition based statistics parameter   Torsten Seemann
      • [Bioperl-l] standalone blast composition based statistics parameter   Hubert Prielinger
      • [Bioperl-l] standalone blast composition based statistics parameter   Torsten Seemann
      • [Bioperl-l] no results with standalone tblastn   Hubert Prielinger
      • [Bioperl-l] no results with standalone tblastn   Torsten Seemann
• [Bioperl-l] Handling miRNA's   barry.m.dancis at gsk.com
  • [Bioperl-l] Handling miRNA's   Brian Osborne
    • [Bioperl-l] Handling miRNA's   barry.m.dancis at gsk.com
      • [Bioperl-l] Handling miRNA's   Chris Fields
      • [Bioperl-l] Handling miRNA's   barry.m.dancis at gsk.com
      • [Bioperl-l] Handling miRNA's   Chris Fields
      • [Bioperl-l] Handling miRNA's   Chris Fields
• [Bioperl-l] RemoteBlast users - potentially major changes - please reply   Roger Hall
• [Bioperl-l] Needed help   Raman Deep Singh
• [Bioperl-l] (no subject)   Paul Boutros
  • [Bioperl-l] RemoteBlast [was: (no subject)]   Roger Hall
    • [Bioperl-l] RemoteBlast [was: (no subject)]   Chris Fields
    • [Bioperl-l] RemoteBlast   Torsten Seemann
  • [Bioperl-l] Remote BLAST support discussion   Jason Stajich
    • [Bioperl-l] Remote BLAST support discussion   Chris Fields
      • [Bioperl-l] Remote BLAST support discussion   Roger Hall
    • [Bioperl-l] Remote BLAST support discussion   Torsten Seemann
• [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Chris Fields
  • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Hilmar Lapp
    • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Chris Fields
  • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Heikki Lehvaslaiho
    • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Chris Fields
      • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Heikki Lehvaslaiho
      • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Chris Fields
      • [Bioperl-l] RNAMotif module (Bio::Tools::RNAMotif)   Heikki Lehvaslaiho
• [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Hubert Prielinger
  • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Chris Fields
    • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Hubert Prielinger
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Chris Fields
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Hubert Prielinger
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Roger Hall
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blastoutput   Joel Steele
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blastoutput   Chris Fields
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Jason Stajich
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Chris Fields
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Roger Hall
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Hubert Prielinger
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsingBlast output   Joel Steele
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsingBlast output   Jason Stajich
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Phillip SanMiguel
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing Blast output   Chris Fields
• [Bioperl-l] Documentation link?   Sam Al-Droubi
  • [Bioperl-l] Documentation link?   Brian Osborne
• [Bioperl-l] Count or weight matrix in bioperl?   Sam Al-Droubi
  • [Bioperl-l] Count or weight matrix in bioperl?   Torsten Seemann
    • [Bioperl-l] Count or weight matrix in bioperl?   Sam Al-Droubi
      • [Bioperl-l] Count or weight matrix in bioperl?   Stefan Kirov
• [Bioperl-l] Tool to mutate DNA sequence   Ryan Golhar
  • [Bioperl-l] [BiO BB] Tool to mutate DNA sequence   pmr at ebi.ac.uk
  • [Bioperl-l] Tool to mutate DNA sequence   Torsten Seemann
  • [Bioperl-l] Tool to mutate DNA sequence   Heikki Lehvaslaiho
  • [Bioperl-l] Tool to mutate DNA sequence   Heikki Lehvaslaiho
    • [Bioperl-l] Tool to mutate DNA sequence   Ryan Golhar
  • [Bioperl-l] Tool to mutate DNA sequence   Jason Stajich
    • [Bioperl-l] Tool to mutate DNA sequence   Boris Steipe
    • [Bioperl-l] [BiO BB] Re: Tool to mutate DNA sequence   Maximilian Haeussler
  • [Bioperl-l] [BiO BB] Tool to mutate DNA sequence   Maximilian Haeussler
    • [Bioperl-l] Matrix Average Code / Module ?   Shameer Khadar
      • [Bioperl-l] Matrix Average Code / Module ?   Boris Steipe
    • [Bioperl-l] [BiO BB] Tool to mutate DNA sequence   khoueiry
• [Bioperl-l] zip file   Hubert Prielinger
• [Bioperl-l] Bio::Assembly::IO::phrap and Bio::Assembly::IO::ace with large files   Sofia Robb
• [Bioperl-l] module for finding restriction site in batch of sequences?   Lalancette, Claudia
  • [Bioperl-l] module for finding restriction site in batch of sequences?   Brian Osborne
  • [Bioperl-l] module for finding restriction site in batch of sequences?   Heikki Lehvaslaiho
• [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Hubert Prielinger
  • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Chris Fields
    • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Pieter Monsieurs
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Pieter Monsieurs
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Hubert Prielinger
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Roger Hall
      • [Bioperl-l] bioperl 1.4 SearchIO doesn't work parsing blast output   Chris Fields
• [Bioperl-l] Bio::TreeIO   Olena Morozova
• [Bioperl-l] Running BLAT with BioPerl   Victor
• [Bioperl-l] planning sequence mutating modules   Heikki Lehvaslaiho
  • [Bioperl-l] planning sequence mutating modules   Heikki Lehvaslaiho
    • [Bioperl-l] planning sequence mutating modules   Georgii A Bazykin
      • [Bioperl-l] planning sequence mutating modules   Heikki Lehvaslaiho
      • [Bioperl-l] planning sequence mutating modules   Ryan Golhar
      • [Bioperl-l] planning sequence mutating modules   Georgii A Bazykin
• [Bioperl-l] Medline to XML   Andrej Kastrin
  • [Bioperl-l] Medline to XML   Allen Day
• [Bioperl-l] Running BLAT with BioPerl   Victor
  • [Bioperl-l] Running BLAT with BioPerl   Jason Stajich
  • [Bioperl-l] Running BLAT with BioPerl   Brian Osborne
• [Bioperl-l] Bio::Ontology::Ontology   Hilmar Lapp
  • [Bioperl-l] Bio::Ontology::Ontology   Heikki Lehvaslaiho
• [Bioperl-l] Bio::Ontology::Ontology   Hilmar Lapp
  • [Bioperl-l] Bio::Ontology::Ontology   chris mungall
    • [Bioperl-l] Bio::Ontology::Ontology   Hilmar Lapp
      • [Bioperl-l] Bio::Ontology::Ontology   Sohel Merchant
      • [Bioperl-l] Bio::Ontology::Ontology   Hilmar Lapp
• [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Harry Mangalam
  • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Brian Osborne
    • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Harry Mangalam
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Jason Stajich
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Sean Davis
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Brian Osborne
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Chris Fields
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Harry Mangalam
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Brian Osborne
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Brian Osborne
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Chris Fields
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Harry Mangalam
      • [Bioperl-l] Fetching genomic sequences based on HUGO names orGeneIDs   Chris Fields
      • [Bioperl-l] Fetching genomic sequences based on HUGO names orGeneIDs   Brian Osborne
      • [Bioperl-l] Fetching genomic sequences based on HUGO names orGeneIDs   Brian Osborne
      • [Bioperl-l] Fetching genomic sequences based on HUGO names or GeneIDs   Brian Osborne
• [Bioperl-l] more question regarding RemoteBlast.pm version 1.28   Chris Fields
  • [Bioperl-l] more on RemoteBlast.pm version 1.28   Guojun Yang
    • [Bioperl-l] more on RemoteBlast.pm version 1.28   Chris Fields
• [Bioperl-l] Pulling exons out of a Genbank mRNA   Amir Karger
  • [Bioperl-l] Pulling exons out of a Genbank mRNA   Hilmar Lapp
    • [Bioperl-l] Pulling exons out of a Genbank mRNA   Brian Osborne
  • [Bioperl-l] Pulling exons out of a Genbank mRNA   Brian Osborne
• [Bioperl-l] more on RemoteBlast.pm version 1.28   Guojun Yang
• [Bioperl-l] game xml SeqIO   Robert Buels
  • [Bioperl-l] game xml SeqIO   Brian Osborne
• [Bioperl-l] INSTALL.WIN in wiki   Chris Fields
• [Bioperl-l] FW: more on RemoteBlast.pm version 1.2   Chris Fields
• [Bioperl-l] Added 'Installing bioperl-db in Windows' to wiki, problems with bioperl-db   Chris Fields
  • [Bioperl-l] Added 'Installing bioperl-db in Windows' to wiki, problems with bioperl-db   Hilmar Lapp
    • [Bioperl-l] Added 'Installing bioperl-db in Windows' to wiki, problems with bioperl-db   Chris Fields
      • [Bioperl-l] Added 'Installing bioperl-db in Windows' to wiki, problems with bioperl-db   Hilmar Lapp
• [Bioperl-l] Error using Bio::Matrix::GenericMatrix   Sam Al-Droubi
  • [Bioperl-l] Error using Bio::Matrix::GenericMatrix   Jason Stajich
• [Bioperl-l] Help   Praveen Raj
• [Bioperl-l] distmat matrix   Daniel Lang
  • [Bioperl-l] distmat matrix   Jason Stajich
• [Bioperl-l] Website issues   michael watson (IAH-C)
  • [Bioperl-l] Website issues   Jason Stajich
    • [Bioperl-l] Website issues   Jason Stajich
      • [Bioperl-l] Website issues   khoueiry
      • [Bioperl-l] Website issues   Heikki Lehvaslaiho
• [Bioperl-l] Bio::Tools::GFF parsing error   Robert Buels
  • [Bioperl-l] Bio::Tools::GFF parsing error   Scott Cain
• [Bioperl-l] Bio::Tools::GFF parsing error   Marc Logghe
• [Bioperl-l] Added 'Installing Bioperl for Unix' to wiki   Chris Fields
• [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pm version 1.28   Guojun Yang
  • [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pmversion 1.28   Chris Fields
  • [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pm version 1.28   Pieter Monsieurs
    • [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pm version 1.28   Chris Fields
    • [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pm version 1.28   Chris Fields
    • [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pm version 1.28   Chris Fields
      • [Bioperl-l] OK for aa seq but not a na seq on RemoteBlast.pmversion 1.28   Chris Fields
      • [Bioperl-l] full chromosome accesscion number mess   Guojun Yang
      • [Bioperl-l] full chromosome accesscion number mess   Chris Fields
• [Bioperl-l] Primer maps?   Michael Coyne
  • [Bioperl-l] Primer maps?   Sean Davis
  • [Bioperl-l] Primer maps?   Harry Mangalam
• [Bioperl-l] error running load_seqdatabase.pl   Sean Davis
• [Bioperl-l] searchIO bug?   Anders Stegmann
  • [Bioperl-l] searchIO bug?   Jason Stajich
• [Bioperl-l] another searchIO bug?   Anders Stegmann
  • [Bioperl-l] another searchIO bug? with blast report   Anders Stegmann
    • [Bioperl-l] another searchIO bug? with blast report   Jason Stajich
      • [Bioperl-l] another searchIO bug? with blast report   Chris Fields
    • [Bioperl-l] another searchIO bug? with blast report   Chris Fields
• [Bioperl-l] CONTIG sequence files from the NCBI   michael watson (IAH-C)
  • [Bioperl-l] CONTIG sequence files from the NCBI   Brian Osborne
• [Bioperl-l] Primer maps?   Marc Logghe
  • [Bioperl-l] Primer maps?   Heikki Lehvaslaiho
• [Bioperl-l] additional error message   Chris Fields
• [Bioperl-l] Minimal versions requirements/warnings for SearchIO text parsing?   Chris Fields
  • [Bioperl-l] Minimal versions requirements/warnings for SearchIO text parsing?   Mike Muratet
• [Bioperl-l] Count or weight matrix in bioperl?   Cook, Malcolm
• [Bioperl-l] Count or weight matrix in bioperl?   pedro fabre
• [Bioperl-l] Bio::SearchIO fix posted in Bugzilla   Chris Fields
• [Bioperl-l] bioperl in jail   Dr. Lutfullah
  • [Bioperl-l] bioperl in jail   Boris Steipe
• [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Gabriel Valiente
  • [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Brian Osborne
• [Bioperl-l] Tested-OK   Guojun Yang
• [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
  • [Bioperl-l] Bio::Graphics off by one?   Lincoln Stein
    • [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
      • [Bioperl-l] Bio::Graphics off by one?   Lincoln Stein
      • [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
      • [Bioperl-l] Bio::Graphics off by one?   Scott Cain
      • [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
      • [Bioperl-l] Bio::Graphics off by one?   Scott Cain
      • [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
      • [Bioperl-l] Bio::Graphics off by one?   Lincoln Stein
      • [Bioperl-l] Bio::Graphics off by one?   Lincoln Stein
      • [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
      • [Bioperl-l] Bio::Graphics off by one?   Lincoln Stein
      • [Bioperl-l] Bio::Graphics off by one?   Dave Howorth
• [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Gabriel Valiente
  • [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Brian Osborne
  • [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Jason Stajich
• [Bioperl-l] planning sequence mutating modules   Georgii A Bazykin
• [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Gabriel Valiente
  • [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Jason Stajich
• [Bioperl-l] Pattern Density   staffa
  • [Bioperl-l] Pattern Density   Brian Osborne
  • [Bioperl-l] seq_word and pattern counts   staffa
    • [Bioperl-l] seq_word and pattern counts   Torsten Seemann
• [Bioperl-l] Local flat file implementation of Bio::DB::Taxonomy   Gabriel Valiente
• [Bioperl-l] Pattern Density   Cook, Malcolm
  • [Bioperl-l] Pattern Density   Brian Osborne
• [Bioperl-l] bioperl maillist searches not updated   Chris Fields
• [Bioperl-l] bioperl-db issues   Chris Fields
  • [Bioperl-l] bioperl-db issues   Hilmar Lapp
    • [Bioperl-l] bioperl-db issues   Chris Fields
• [Bioperl-l] removing sequences from a database?   Chris Fields
  • [Bioperl-l] removing sequences from a database?   Hilmar Lapp
• [Bioperl-l] [Fwd: Re: Pattern Density]   khoueiry
• [Bioperl-l] Blast returns result, but does not return hits   Raghunath Verabelli
  • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
    • [Bioperl-l] Blast returns result, but does not return hits   Raghunath Verabelli
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
      • [Bioperl-l] Blast returns result, but does not return hits   Raghunath Verabelli
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
      • [Bioperl-l] Blast returns result, but does not return hits   Raghunath Verabelli
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
      • [Bioperl-l] Blast returns result, but does not return hits   Raghunath Verabelli
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
      • [Bioperl-l] Blast returns result, but does not return hits   Jason Stajich
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
      • [Bioperl-l] Blast returns result, but does not return hits   Raghunath Verabelli
      • [Bioperl-l] Blast returns result, but does not return hits   Chris Fields
• [Bioperl-l] urgent help required - syntax for using paramaters different from default in standalone blast   neeti somaiya
  • [Bioperl-l] urgent help required - syntax for using paramaters different from default in standalone blast   neeti somaiya
  • [Bioperl-l] urgent help required - syntax for using paramatersdifferent from default in standalone blast   Chris Fields
• [Bioperl-l] urgent help required - syntax for using paramaters different from default in standalone blast   neeti somaiya
• [Bioperl-l] CONTIG sequence files from the NCBI   michael watson (IAH-C)
• [Bioperl-l] using parameters other than default in standalone blast   neeti somaiya
• [Bioperl-l] [BioSQL-l] Load seqfeature from biosql database with perl   Hilmar Lapp
• [Bioperl-l] Problem in BioPerl. Help!   Praveen Raj
  • [Bioperl-l] Problem in BioPerl. Help!   Roy Chaudhuri
• [Bioperl-l] extract ncDNA   perlmails at gmail.com
  • [Bioperl-l] extract ncDNA   Chris Fields
• [Bioperl-l] Is it worth it?   Sam Al-Droubi
  • [Bioperl-l] Is it worth it?   Joel Dudley
    • [Bioperl-l] Is it worth it?   Sean Davis
      • [Bioperl-l] Is it worth it?   Boris Steipe
• [Bioperl-l] Is it worth it?   Stephen Gordon Lenk
• [Bioperl-l] BioPerlers Represent!   Joel Dudley
• [Bioperl-l] Bio::SeqIO -- Reading Formated sequence file (Fasta) into Array   Edward WIJAYA
  • [Bioperl-l] Bio::SeqIO -- Reading Formated sequence file (Fasta) into Array   Jason Stajich
    • [Bioperl-l] Bio::SeqIO -- Reading Formated sequence file(Fasta) into Array   Chris Fields
• [Bioperl-l] Are frac_identical and frac_conserved methods for hit or for hsp objects?   Javier Forment
  • [Bioperl-l] Are frac_identical and frac_conserved methods for hit or for hsp objects?   Jason Stajich
• [Bioperl-l] GFF feature start and end points on reverse strand   James Allen
  • [Bioperl-l] GFF feature start and end points on reverse strand   Lincoln Stein
• [Bioperl-l] Bioperl use question   Philip M Terry
• [Bioperl-l] seq_word and pattern counts   Staffa, Nick (NIH/NIEHS) [C]
  • [Bioperl-l] seq_word and pattern counts   Torsten Seemann
• [Bioperl-l] seq_word and pattern counts   Staffa, Nick (NIH/NIEHS) [C]
  • [Bioperl-l] seq_word and pattern counts   Torsten Seemann
• [Bioperl-l] WGS sequences through Bio::DB::GenBank   Chris Fields

Last message date: Wed Mar 1 02:41:08 UTC 2006
Archived on: Mon Jun 16 02:46:36 UTC 2014

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