Thursday, May 24, 2007

BioSQL Installed .. Connected Components

I have installed BioSQL on the machine that I am using for development. I had to modify the existing SQL code slightly to work on MySQL.

I have been working the past few days with the perl module Graph as part of the RepMiner project. I have been really happy with the connected components function. This provides a very quick way to generate some very basic clusters from All-By-All BLAST results. With 2GB of memory, I will be able to cluster most of my LTR retrotransposon data sets using this function.

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