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Using Java to find the needle in the DNA haystack

Mar 14, 2008, 07:00 (0 Talkback[s])
(Other stories by Paul Reiners)

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"You take a problem that could be solved recursively from the top down and solve it iteratively from the bottom up instead. You store your intermediate results in a table for later use; otherwise, you would end up computing them repeatedly — an inefficient algorithm. But dynamic programming is usually applied to optimization problems like the rest of this article's examples, rather than to problems like the Fibonacci problem. The next example is a string algorithm, like those commonly used in computational biology."

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