June 2010 Archives by thread

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Starting: Tue Jun 1 08:03:48 UTC 2010
Ending: Wed Jun 30 17:47:39 UTC 2010
Messages: 265

• [Bioperl-l] Bio::Assembly::Contig object does not contain reads in opposite orientation   Jiri Stiller
  • [Bioperl-l] Bio::Assembly::Contig object does not contain reads in opposite orientation   Mark A. Jensen
• [Bioperl-l] return type of $feature->seq() (comments on a commit [bioperl/bioperl-live fcd90e0])   Adam Sjøgren
  • [Bioperl-l] return type of $feature->seq() (comments on a commit [bioperl/bioperl-live fcd90e0])   Chris Fields
• [Bioperl-l] blastxml to table   Robson de Souza
  • [Bioperl-l] blastxml to table   Chris Fields
    • [Bioperl-l] blastxml to table   Robson de Souza
• [Bioperl-l] general perl question   Dimitar Kenanov
  • [Bioperl-l] general perl question   Smithies, Russell
• [Bioperl-l] rebase file withrefm   Staffa, Nick (NIH/NIEHS) [C]
  • [Bioperl-l] rebase file withrefm   Dave Messina
    • [Bioperl-l] rebase file withrefm   Staffa, Nick (NIH/NIEHS) [C]
      • [Bioperl-l] rebase file withrefm   Dave Messina
      • [Bioperl-l] rebase file withrefm   Staffa, Nick (NIH/NIEHS) [C]
• [Bioperl-l] Does bioperl support the search in pubmed and the retrieval of the results?   Peng Yu
  • [Bioperl-l] Does bioperl support the search in pubmed and the retrieval of the results?   Florent Angly
• [Bioperl-l] BlastPlusMethods   Dimitar Kenanov
  • [Bioperl-l] BlastPlusMethods   Mark A. Jensen
• [Bioperl-l] tempfile problem with standalone blast   Gopal
  • [Bioperl-l] tempfile problem with standalone blast   Chris Fields
    • [Bioperl-l] tempfile problem with standalone blast   Gopal
      • [Bioperl-l] tempfile problem with standalone blast   Chris Fields
      • [Bioperl-l] tempfile problem with standalone blast   Gopal
      • [Bioperl-l] tempfile problem with standalone blast   Chris Fields
• [Bioperl-l] How to print get_available_databases?   Peng Yu
  • [Bioperl-l] How to print get_available_databases?   Chris Fields
  • [Bioperl-l] How to print get_available_databases?   Dave Messina
• [Bioperl-l] CFP: 23rd IEEE International Symposium on Computer-Based Medical Systems 2010 (IEEE CBMS 2010)   Amandeep Sidhu
• [Bioperl-l] Highlighted short sequences   Jessica Sun
  • [Bioperl-l] Highlighted short sequences   Dave Messina
    • [Bioperl-l] Highlighted short sequences   Chris Fields
• [Bioperl-l] The usage of $field->$_   Peng Yu
  • [Bioperl-l] The usage of $field->$_   Mark A. Jensen
    • [Bioperl-l] The usage of $field->$_   Peng Yu
      • [Bioperl-l] The usage of $field->$_   Kevin Brown
  • [Bioperl-l] The usage of $field->$_   Chris Fields
• [Bioperl-l] Is term_count available for einfo (EUtilities)?   Peng Yu
  • [Bioperl-l] Is term_count available for einfo (EUtilities)?   Dave Messina
    • [Bioperl-l] Is term_count available for einfo (EUtilities)?   Chris Fields
  • [Bioperl-l] Is term_count available for einfo (EUtilities)?   Chris Fields
• [Bioperl-l] get_dbfrom document   Peng Yu
  • [Bioperl-l] get_dbfrom document   Dave Messina
  • [Bioperl-l] get_dbfrom document   Chris Fields
• [Bioperl-l] typo in perldoc of get_replaced_terms   Peng Yu
  • [Bioperl-l] typo in perldoc of get_replaced_terms   Dave Messina
  • [Bioperl-l] typo in perldoc of get_replaced_terms   Chris Fields
• [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   armendarez77 at hotmail.com
  • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   Dave Messina
    • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   Chris Fields
      • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   armendarez77 at hotmail.com
      • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   Dave Messina
      • [Bioperl-l] Fwd: Bio::Tools::Run::Primer3 vs Web Primer 3   Dave Messina
      • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   armendarez77 at hotmail.com
      • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   Dave Messina
      • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   armendarez77 at hotmail.com
      • [Bioperl-l] Bio::Tools::Run::Primer3 vs Web Primer 3   Chris Fields
• [Bioperl-l] typo in perldoc of get_replaced_terms   Dave Messina
  • [Bioperl-l] typo in perldoc of get_replaced_terms   Peng Yu
    • [Bioperl-l] typo in perldoc of get_replaced_terms   Chris Fields
• [Bioperl-l] Leftover SVN tags   Chris Fields
  • [Bioperl-l] Leftover SVN tags   Hilmar Lapp
    • [Bioperl-l] Leftover SVN tags   Chris Fields
      • [Bioperl-l] Leftover SVN tags   Dave Messina
      • [Bioperl-l] Leftover SVN tags   Dave Messina
      • [Bioperl-l] Leftover SVN tags   Chris Fields
      • [Bioperl-l] Leftover SVN tags   Dave Messina
• [Bioperl-l] not specifying some parameters to reset_parameters (Bio::DB::EUtilities)   Peng Yu
  • [Bioperl-l] not specifying some parameters to reset_parameters (Bio::DB::EUtilities)   Chris Fields
• [Bioperl-l] bioperl support for running blast locally   Peng Yu
  • [Bioperl-l] bioperl support for running blast locally   Florent Angly
    • [Bioperl-l] bioperl support for running blast locally   Peng Yu
      • [Bioperl-l] bioperl support for running blast locally   Chris Fields
      • [Bioperl-l] bioperl support for running blast locally   Peng Yu
      • [Bioperl-l] bioperl support for running blast locally   Chris Fields
• [Bioperl-l] Where to download Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
  • [Bioperl-l] Where to download Bio::Tools::Run::StandAloneBlastPlus?   Chris Fields
• [Bioperl-l] Bio::SeqFeature::Annotated migration branch   Chris Fields
  • [Bioperl-l] Bio::SeqFeature::Annotated migration branch   Chris Fields
• [Bioperl-l] ./Build install doesn't install bioperl-run   Peng Yu
  • [Bioperl-l] ./Build install doesn't install bioperl-run   Chris Fields
  • [Bioperl-l] ./Build install doesn't install bioperl-run   Dave Messina
    • [Bioperl-l] ./Build install doesn't install bioperl-run   Chris Fields
      • [Bioperl-l] ./Build install doesn't install bioperl-run   Dave Messina
    • [Bioperl-l] ./Build install doesn't install bioperl-run   Peng Yu
      • [Bioperl-l] ./Build install doesn't install bioperl-run   Dave Messina
      • [Bioperl-l] ./Build install doesn't install bioperl-run   Peng Yu
      • [Bioperl-l] ./Build install doesn't install bioperl-run   Chris Fields
      • [Bioperl-l] ./Build install doesn't install bioperl-run   Dave Messina
• [Bioperl-l] Inherent graph on classes in Bio::Search?   Peng Yu
  • [Bioperl-l] Inherent graph on classes in Bio::Search?   Dave Messina
  • [Bioperl-l] Inherent graph on classes in Bio::Search?   Chris Fields
• [Bioperl-l] How put tmp file in the tmp directory when using Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
  • [Bioperl-l] How put tmp file in the tmp directory when using Bio::Tools::Run::StandAloneBlastPlus?   Dave Messina
  • [Bioperl-l] How put tmp file in the tmp directory when using Bio::Tools::Run::StandAloneBlastPlus?   Chris Fields
    • [Bioperl-l] How put tmp file in the tmp directory when using Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
      • [Bioperl-l] How put tmp file in the tmp directory when using Bio::Tools::Run::StandAloneBlastPlus?   Chris Fields
• [Bioperl-l] Bio::Location::Simple's is_remote() missing?   Peng Yu
  • [Bioperl-l] Bio::Location::Simple's is_remote() missing?   Chris Fields
    • [Bioperl-l] Bio::Location::Simple's is_remote() missing?   Peng Yu
      • [Bioperl-l] Bio::Location::Simple's is_remote() missing?   Chris Fields
      • [Bioperl-l] Bio::Location::Simple's is_remote() missing?   Hilmar Lapp
• [Bioperl-l] num_hits and next_hit() bug in Bio::Search::Result::BlastResult?   Peng Yu
  • [Bioperl-l] num_hits and next_hit() bug in Bio::Search::Result::BlastResult?   Jason Stajich
• [Bioperl-l] Bio::Graphics::Panel and utf-8 chars in labels   Adam Sjøgren
  • [Bioperl-l] Bio::Graphics::Panel and utf-8 chars in labels   Scott Cain
  • [Bioperl-l] Bio::Graphics::Panel and utf-8 chars in labels   Lincoln Stein
• [Bioperl-l] How to do a megablast with Bioperl?   Rondon Neto
  • [Bioperl-l] How to do a megablast with Bioperl?   Dave Messina
• [Bioperl-l] Res: How to do a megablast with Bioperl?   Dave Messina
  • [Bioperl-l] Res: Res: How to do a megablast with Bioperl?   Rondon Neto
• [Bioperl-l] Get variation included in genbank file   Jessica Sun
  • [Bioperl-l] Get variation included in genbank file   Dave Messina
    • [Bioperl-l] new record?   Smithies, Russell
      • [Bioperl-l] new record?   Jay Hannah
    • [Bioperl-l] Get variation included in genbank file   Jessica Sun
      • [Bioperl-l] Fwd: Get variation included in genbank file   Jessica Sun
      • [Bioperl-l] Get variation included in genbank file   Dave Messina
• [Bioperl-l] How to print encoded fastq quality string? (Bio::Seq::Quality)   Peng Yu
  • [Bioperl-l] How to print encoded fastq quality string?   Smithies, Russell
    • [Bioperl-l] How to print encoded fastq quality string?   Chris Fields
• [Bioperl-l] about blast   Dimitar Kenanov
• [Bioperl-l] more problems with blast   Dimitar Kenanov
  • [Bioperl-l] more problems with blast   Chris Fields
• [Bioperl-l] Merge branch 'master' ?   Jay Hannah
  • [Bioperl-l] Merge branch 'master' ?   Kai Blin
  • [Bioperl-l] Merge branch 'master' ?   Chris Fields
  • [Bioperl-l] Merge branch 'master' ?   Hilmar Lapp
    • [Bioperl-l] Merge branch 'master' ?   Chris Fields
    • [Bioperl-l] Merge branch 'master' ?   Kai Blin
  • [Bioperl-l] Merge branch 'master' ?   Florent Angly
    • [Bioperl-l] Merge branch 'master' ?   Razi Khaja
• [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
  • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Smithies, Russell
    • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
      • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Smithies, Russell
      • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
      • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Smithies, Russell
      • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
      • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Smithies, Russell
• [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Smithies, Russell
• [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Smithies, Russell
  • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Peng Yu
    • [Bioperl-l] How to run blastn with -task blastn option from Bio::Tools::Run::StandAloneBlastPlus?   Chris Fields
• [Bioperl-l] patch: fix parsing of FASTA results   Aaron Mackey
  • [Bioperl-l] patch: fix parsing of FASTA results   Dave Messina
• [Bioperl-l] How to determine match type from Bio::Coordinate::GeneMapper   Ryan
• [Bioperl-l] Get variation included in genbank file   Dave Messina
  • [Bioperl-l] Get variation included in genbank file   Jessica Sun
    • [Bioperl-l] Get variation included in genbank file   Dave Messina
    • [Bioperl-l] Get variation included in genbank file   Chris Fields
      • [Bioperl-l] Get variation included in genbank file   Dave Messina
      • [Bioperl-l] Get variation included in genbank file   Jessica Sun
      • [Bioperl-l] Get variation included in genbank file   Chris Fields
      • [Bioperl-l] Get variation included in genbank file   Jessica Sun
      • [Bioperl-l] Get variation included in genbank file   Dave Messina
• [Bioperl-l] commandexts and array refs bug - found problem, not sure of best fix   Ben Bimber
  • [Bioperl-l] commandexts and array refs bug - found problem, not sure of best fix   Chris Fields
• [Bioperl-l] Get GIs from Taxonomy ID   armendarez77 at hotmail.com
  • [Bioperl-l] Get GIs from Taxonomy ID   Dave Messina
    • [Bioperl-l] Get GIs from Taxonomy ID   shalabh sharma
    • [Bioperl-l] Get GIs from Taxonomy ID   Smithies, Russell
      • [Bioperl-l] Get GIs from Taxonomy ID   Chris Fields
      • [Bioperl-l] Get GIs from Taxonomy ID   Smithies, Russell
      • [Bioperl-l] Get GIs from Taxonomy ID   armendarez77 at hotmail.com
• [Bioperl-l] recursion limit reached for a gbk file   Gopal
  • [Bioperl-l] recursion limit reached for a gbk file   Dave Messina
• [Bioperl-l] commandexts and array refs bug - found problem, not sure of best fix   Ben Bimber
  • [Bioperl-l] commandexts and array refs bug - found problem, not sure of best fix   Chris Fields
• [Bioperl-l] Programmer Analyst Position at Columbia Univ.   Chase Miller
  • [Bioperl-l] Programmer Analyst Position at Columbia Univ.   Hilmar Lapp
• [Bioperl-l] recursion limit reached for a gbk file   Dave Messina
• [Bioperl-l] a possible issue in synopsis of BioPerl-1.6.1 > Bio::Restriction::Analysis   А
  • [Bioperl-l] a possible issue in synopsis of BioPerl-1.6.1 > Bio::Restriction::Analysis   Dave Messina
• [Bioperl-l] Regulars on IRC - GMT offsets, locations   Jay Hannah
• [Bioperl-l] Error when using EUtilities to download elink with parameter LinkName=gene_pubmed   Peng Yu
  • [Bioperl-l] Error when using EUtilities to download elink with parameter LinkName=gene_pubmed   Chris Fields
  • [Bioperl-l] Error when using EUtilities to download elink with parameter LinkName=gene_pubmed   Smithies, Russell
• [Bioperl-l] [OT] Bioconductor Conference   Sean Davis
• [Bioperl-l] RE. installing BioPerl-run-1.6.1.tar.gz‏   Arthur Lin
  • [Bioperl-l] RE. installing BioPerl-run-1.6.1.tar.gz‏   Florent Angly
• [Bioperl-l] Retrieving upstream & downstream sequences   Ross KK Leung
  • [Bioperl-l] Retrieving upstream & downstream sequences   Dave Messina
  • [Bioperl-l] Retrieving upstream & downstream sequences   Stefan Kirov
• [Bioperl-l] Bio::SeqFeature::Generic clone()   Jay Hannah
  • [Bioperl-l] Bio::SeqFeature::Generic clone()   Lincoln Stein
    • [Bioperl-l] Bio::SeqFeature::Generic clone()   Chris Fields
    • [Bioperl-l] Bio::SeqFeature::Generic clone()   Jay Hannah
• [Bioperl-l] Script to Calculate Pairwise Ka,Ks   Jason Stajich
• [Bioperl-l] Get a partial GenBank of a circular DNA   Roi Brodo
  • [Bioperl-l] Get a partial GenBank of a circular DNA   Roy Chaudhuri
• [Bioperl-l] Getting the HMMer3 parser integrated into the next BioPerl release, call for testing   Kai Blin
• [Bioperl-l] Install problem, Mac   perlcurl
  • [Bioperl-l] Install problem, Mac   Adam Witney
    • [Bioperl-l] Install problem, Mac   perlcurl
      • [Bioperl-l] Install problem, Mac   Adam Witney
  • [Bioperl-l] Install problem, Mac   Jun Yin
    • [Bioperl-l] Install problem, Mac   perlcurl
• [Bioperl-l] Interface of the method   Jun Yin
  • [Bioperl-l] Interface of the method   Jun Yin
  • [Bioperl-l] Interface of the method   Dave Messina
    • [Bioperl-l] Interface of the method   Jun Yin
      • [Bioperl-l] Interface of the method   Dave Messina
      • [Bioperl-l] Interface of the method   Jun Yin
      • [Bioperl-l] Interface of the method   Chris Fields
      • [Bioperl-l] Interface of the method   Jun Yin
      • [Bioperl-l] Interface of the method   Chris Fields
• [Bioperl-l] Bio module using Moose   Emmanuel Quevillon
  • [Bioperl-l] Bio module using Moose   Chris Fields
    • [Bioperl-l] Bio module using Moose   Emmanuel Quevillon
      • [Bioperl-l] Bio module using Moose   Chris Fields
      • [Bioperl-l] Bio module using Moose   Bruno Vecchi
      • [Bioperl-l] Bio module using Moose   Chris Fields
      • [Bioperl-l] Bio module using Moose   Bruno Vecchi
• [Bioperl-l] Firefox extension project   Stefan Kirov
• [Bioperl-l] GMOD Meeting Announcement: September 13-14 in Cambridge, England   Scott Cain
• [Bioperl-l] What has bioinformatics ever done for us?   Anthony Goldbloom
• [Bioperl-l] RE. installing BioPerl-run-1.6.1.tar.gz‏   Florent Angly
  • [Bioperl-l] RE. installing BioPerl-run-1.6.1.tar.gz‏   Chris Fields
  • [Bioperl-l] RE. installing BioPerl-run-1.6.1.tar.gz‏   Arthur Lin
• [Bioperl-l] "500 Cannot connect to ----------- (Bad Host name)"   Prem
• [Bioperl-l] Status of assembly modules   Florent Angly
• [Bioperl-l] Finding homologous (fasta files) via blast   Rikusia
• [Bioperl-l] YAPC::NA 2010 perl conference   Jay Hannah
  • [Bioperl-l] YAPC::NA 2010 perl conference   Scott Cain
  • [Bioperl-l] YAPC::NA 2010 perl conference   George Hartzell
• [Bioperl-l] NetBlast path. Not found.   Rikusia
• [Bioperl-l] bioperl.org is down?   Jay Hannah
  • [Bioperl-l] bioperl.org is down?   Spiros Denaxas
• [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
  • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Warren W. Kretzschmar
    • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Warren W. Kretzschmar
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Chris Fields
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Jay Hannah
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Chris Fields
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Chris Fields
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Abhishek Pratap
      • [Bioperl-l] Passing/Storing "Bio::SeqIO" object to a function   Chris Fields
• [Bioperl-l] Splitting out Bio::Microarray   Chris Fields
  • [Bioperl-l] Splitting out Bio::Microarray   Chris Fields
    • [Bioperl-l] Splitting out Bio::Microarray   Chris Fields
  • [Bioperl-l] Splitting out Bio::Microarray   Hilmar Lapp
    • [Bioperl-l] Splitting out Bio::Microarray   Chris Fields
• [Bioperl-l] version() vs seq_version()   Chris Fields
  • [Bioperl-l] version() vs seq_version()   Hilmar Lapp
    • [Bioperl-l] version() vs seq_version()   Chris Fields
• [Bioperl-l] BLAT Howto?   Minh Bui
• [Bioperl-l] maf write   Sahl, Jason
  • [Bioperl-l] Getting whole gene info with SeachIO   Juan Jovel
    • [Bioperl-l] Getting whole gene info with SeachIO   Chris Fields
    • [Bioperl-l] Getting whole gene info with SeachIO   shalabh sharma
• [Bioperl-l] Error when Using BLAT????   Minh Bui
• [Bioperl-l] Plotting per-nucleotide-score vs. genome   David Breimann
  • [Bioperl-l] Plotting per-nucleotide-score vs. genome   Peter
    • [Bioperl-l] Plotting per-nucleotide-score vs. genome   Chris Fields
      • [Bioperl-l] Parsing by organism   Juan Jovel
      • [Bioperl-l] Parsing by organism   shalabh sharma
      • [Bioperl-l] SearchIO hit->description mod?   Smithies, Russell
• [Bioperl-l] EUtilities pubmed search with [Mesh Terms]   Peng Yu
  • [Bioperl-l] EUtilities pubmed search with [Mesh Terms]   Chris Fields
• [Bioperl-l] Seeking comments, Bio::Species memleak fix   Chris Fields

Last message date: Wed Jun 30 17:47:39 UTC 2010
Archived on: Mon Jun 16 02:50:36 UTC 2014

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