Difference: JaysTermTwoJournal (10 vs. 11)

Revision 112011-02-11 - jayzhang

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META TOPICPARENT	name="NGSAlignerProject"

01/05/2011

Started reading more in-depth into CUDA. Made some notes (I'll post them later).

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On the flip side, I'm also working on getting a testing framework set up so I can verify the correctness of my results. I'm thinking I'll just generate some random sequences, run them through one of my existing local aligners to get the scores. Then, I'll just make sure the scores match.

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02/10/2011

Finally finished getting all the gpuocelot stuff in place and the trace generators working. Now to start getting some tests written.

I guess I'll have two different sets of tests. One set will just be a bunch of pairs of sequences, one being the read and the other being the reference (with some mismatches/gaps inserted). Another set will have reads matched with multiple candidate alignments (a variable amount). The second set should more accurately simulate the alignment process. To verify, I'm just going to run the alignments through the existing local aligners to get scores.

-- Main.jayzhang - 05 Jan 2011

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