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{bio,medical} informatics

Thursday, October 16, 2003

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find related articles. powered by google. Perl.Com A Chromosome at a Time with Perl, Part 2

"In my previous article, A Chromosome at a Time with Perl, Part I, I showed you some programming "tricks" that help you avoid the trap of using up all your main memory when coding for very long strings, such as chromosomes and entire genomes."

"This article will continue that discussion. I'll show you more about how references can greatly speed up a subroutine call by avoiding making copies of very large strings. I'll show you how you can bypass the overhead of subroutine calls entirely. I'll extend the previous example of a buffer window into a large file, making it suited to any situation where you know the minimum and maximum length of a pattern for which you're searching. And I'll show you how to quantify the behavior of your code by measuring its speed and space usage."

[ rhetoric ]

Bioinformatics will be at the core of biology in the 21st century. In fields ranging from structural biology to genomics to biomedical imaging, ready access to data and analytical tools are fundamentally changing the way investigators in the life sciences conduct research and approach problems. Complex, computationally intensive biological problems are now being addressed and promise to significantly advance our understanding of biology and medicine. No biological discipline will be unaffected by these technological breakthroughs.


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