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Featured Book

Mastering Perl for Bioinformatics Mastering Perl for Bioinformatics covers the core Perl language and many of its module extensions, presenting them in the context of biological data. This book starts where Beginning Perl for Bioinformatics leaves off, covering references, complex data structures, object-oriented programming, and module use. The book then presents advanced topics, including gene finding, string alignment, data storage and retrieval, and biological computation models. Full of real-world biological problem solving, this book is a must for anyone wanting to move beyond beginner-level Perl for bioinformatics. Sample Chapter 9, Introduction to Bioperl, is available online.

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Conference

O'Reilly's 2003 Bioinformatics Technology Conference in February brought together hundreds of scientists, researchers, programmers, and bioinformaticians to examine the state of computational biology and learn from each other's study and practice. Find out what happened on O'Reilly Network's Conference Coverage site, and download the presentation files.

Bioinformatics Technology Conference 2002 BioCon Presentation Downloads -- O'Reilly's 2002 Bioinformatics Technology Conference was a great success. If you couldn't attend the conference, you'll find many of the presentations available for download.

Selected Projects

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News & Articles [News Archive]

Your O'Reilly Account: New, Single Sign On -- O'Reilly customers and guests now have a single address and one password to access all things O'Reilly, from oreilly.com and Safari Bookshelf to all of the O'Reilly Network sites and DevCenters. When possible, we've consolidated your prior, separate accounts into one new account. Logging into the new system is quick and easy; details on how to do it have been emailed to you, and you can read more about O'Reilly's single sign on in Tony Stubblebine's weblog.


Java APIs for Bioinformatics -- This introduction to Java APIs for bioinformatics includes usage information, examples, and current design challenges for API developers in the life sciences field. You'll find all of O'Reilly's books and articles on bioinformatics at bio.oreilly.com.

O'Reilly Network Safari Bookshelf Safari Gets Bigger and Better -- There are now more than 2,000 books from the industry's leading technical publishers available on Safari Bookshelf. As the library grows, so does its functionality: searches are powerfully precise and as broad or specific as you wish; and now, with a Safari Max subscription, you can download chapters to read offline. Safari will help you save time, reduce errors, keep current, and save more money than ever with up to 35% off print copies of your favorite books. If you haven't yet gone on Safari, try a free trial subscription.

A Chromosome at a Time with Perl, Part 2 -- In the conclusion to his two-part series on using Perl in the bioinformatics realm, James Tisdall shows how references can speed up a subroutine call, how to bypass the overhead of subroutine calls entirely, and how to quantify the behavior of your code. James is the author of Mastering Perl for Bioinformatics.

Bullfrog A Chromosome at a Time with Perl -- James Tisdall offers a handful of tricks that will enable Perl programmers to write performance-efficient code for dealing with large amounts of biological sequence data. James is the author of Mastering Perl for Bioinformatics.

Twenty-First Century Rocket Science -- Bioinformatics, genomics, proteomics: these are the buzzwords of the twenty-first century. Ian Korf shows you how to use BLAST, Unix, and Perl to do some cutting-edge science, with a PC from the comfort of your living room. Ian is a coauthor of BLAST.

tadpoles Sequence Database Data Formats -- Bioinformatics, as we know it today, exists because of the vast number of sequence databases created in the last 15 years. Part 1 of Sequence Analysis in a Nutshell explains the more popular flat file formats and focuses on describing, in detail, their sometimes cryptic content. Get a free trial to read this and four other O'Reilly books on Safari.

An Interview with George Dyson -- In this interview with chromatic, George Dyson talks about his upcoming OSCON keynote in which he'll explore the pioneering work in computation and computational biology at the Institute for Advanced Study, drawing parallels between that world and open source development.

Grid Engine 5.3p3 Is Now Ready -- This patch release changes the binaries, the architecture independent files ("common" package), and the documentation ("doc" package). The updated PDF documentation set for SGE and SGEEE is provided by Sun Microsystems as a courtesy contribution for users of the Grid Engine open source software.

Howler Monkey Sift, Stir, Code: O'Reilly Cookbooks -- Looking for the right ingredients to solve a programming problem? Look no further than O'Reilly Cookbooks. Each cookbook contains hundreds of programming recipes presented in a special Problem/Solution/Discussion format, and includes hundreds of scripts, programs, and command sequences you can use to solve specific dilemmas. Get your daily recipes and view our complete list of Programming Cookbooks for Geeks.

Stein Gives Bioinformatics Ten Years to Live -- In his continuing coverage from the conference floor, Daniel H. Steinberg reports on Lincoln Stein's keynote, "Bioinformatics: Gone in 2012," at the O'Reilly Bioinformatics Technology Conference. Get all the news from this year's event on O'Reilly Network's BioCon 2003 Conference Coverage page.


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