http://www.g-language.org/wiki/ 2008-11-20T09:55:42+09:00 http://www.g-language.org/wiki/ http://www.g-language.org/wiki/lib/images/favicon.ico text/html 2008-11-14T00:55:47+09:00 gaou http://www.g-language.org/wiki/changelog?rev=1226591747&do=diff Optimization work in progress list v.1.8.6 in development * fixed a bug in $gb->before_startcodon, after_startcodon, before_stopcodon, after_stopcodon, where the functions returned wrong sequence when the requested length was not available at sequence ends. text/html 2008-11-01T04:23:59+09:00 gaou http://www.g-language.org/wiki/home?rev=1225481039&do=diff The G-language Genome Analysis Environment is a generic genome analysis environment aiming to: * Construct an integrated environment for the development of analysis software. * Systematically accumulate existing analysis software methodologies for analysis and their results. * Construct generic analysis packages that allow users to avoid redundancy in the process of analysis. text/html 2008-11-01T04:22:58+09:00 gaou http://www.g-language.org/wiki/software?rev=1225480978&do=diff standard Perl package & source code (for all UNIX) * v.1.8.5 (tar ball package) This is a standard CPAN-style installer. Just do the following: perl Makefile.PL make sudo make install for MacOS X 10.5 (Leopard) Intel * v.1.8.4 binary package (.dmg) text/html 2008-10-29T14:17:56+09:00 haruo http://www.g-language.org/wiki/publications?rev=1225257476&do=diff Book about G-language System * "Learning Bioinformatics with Open Source Software", (in Japanese), Japan Open Bioinformatics Research Group, Tokyo Denki University Press, 2008, (ISBN4501622601) Amazon.co.jp. Publication about G-language System * "G-language Genome Analysis Environment: a workbench for nucleotide sequence data mining", Arakawa K, Mori K, Ikeda K, Matsuzaki T, Kobayashi Y, Tomita M, Bioinformatics, 2003, 19(2):305-306 (PubMed) text/html 2008-08-13T17:05:52+09:00 gaou http://www.g-language.org/wiki/optimization?rev=1218614752&do=diff optimized lib/G/IO/FastaI.pm lib/G/DB/BDB.pm lib/G/DB/Handler.pm lib/G/DB/SDB.pm lib/G/IO/Annotation.pm lib/G/IO/GenBankI.pm lib/G/IO/EmblI.pm lib/G/IO/GenBankO.pm lib/G/IO/Handler.pm lib/G/Seq/Align.pm lib/G/Seq/AminoAcid.pm lib/G/Seq/COMGA.pm lib/G/Seq/Codon.pm lib/G/Seq/Consensus.pm lib/G/Seq/FreeEnergy.pm lib/G/Seq/ImaGene.pm lib/G/Seq/Markov.pm lib/G/Seq/Operon.pm lib/G/Seq/OverLapping.pm lib/G/Seq/PatSearch.pm lib/G/Seq/Tandem.pm lib/G/Seq/GenomeMap.pm lib/G/Seq/GCskew.pm lib/G/Seq/Ut…