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By bloid
via plindenbaum.blogspot.com
Published: Apr 07 2008 / 09:48
I've been looking at the java implementation of the BerkeleyDB (BDB) just to watch its performance according to my needs. This engine can be used as en embedded database and doesn't need a database server running as a daemon (just like JavaDB). A BDB berkeley database contains records where each record contains a "key" and a "value" (a kind of two columns database, or a kind of C++ std::multimap). In the current post, I'll describe a program which 1) download some genotypes from HapMap 2) Find the pedigree of the samples 3) Loop over the markers (ordered on their position on the genome) and get the frequency 4) find Mendelian incompatibilities
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