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Threading Together Those Itty Bitty Reads

Over at MassGenomics, Dan Koboldt has a post comparing Maq, Eland, and other short-read sequence alignment tools. "These programs are finally being evaluated against appropriate data sets, as opposed to simulated reads or tiny genomes," he writes. Koboldt himself didn't use the tools, so the data comes from other sources, some of whom contributed their own opinions on how the algorithms stack up.