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BioTools

BioTools. Projects – 1 st conf next week. statement of the question -- broad enough to be of interest, constrained enough to be realizable current literature subtopics (algorithms, experimental data, discussion, etc.) who will do which subtopics

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BioTools

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  1. BioTools

  2. Projects – 1st conf next week • statement of the question -- broad enough to be of interest, constrained enough to be realizable • current literature • subtopics (algorithms, experimental data, • discussion, etc.) • who will do which subtopics • schedule of when specific things will be completed • other particulars which are dictated by the nature of the project

  3. Open Bioinformatics Foundation http://open-bio.org/ ‘a non profit, volunteer run organization focused on supporting open source programming in bioinformatics’

  4. Projects • BioPerl • BioJava • BioPython • BioRuby • BioSQL / OBDA • MOBY • DAS • BioPathways • EMBOSS

  5. Bioperl ‘The Bioperl server provides an online resource for modules, scripts, and web links for developers of Perl-based software for life science research.’

  6. Biojava ‘The BioJava Project is an open-source project dedicated to providing Java tools for processing biological data.’

  7. Biopython ‘The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology.’

  8. Bioruby ‘BioRuby project aims to implement integrated environment for Bioinformatics by using Ruby.’

  9. BioMoby ‘BioMOBY is an international research project involving biological data hosts, biological data service providors, and coders whose aim is to explore various methodologies for biological data representation, distribution, and discovery.’

  10. bioDAS ‘An Open Source system for exchanging annotations on genomic sequence data.’

  11. EMBOSS The European Molecular Biology Open Software Suite ‘EMBOSS is a package of high-quality FREE Open Source software for sequence analysis.’

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  13. Next HW • Will be assignment to use BioPerl (on AFS) to perform a number of operations. • Quick start:http://www.bioperl.org/Core/bptutorial.htmlhttp://www.pasteur.fr/recherche/unites/sis/formation/bioperl/

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