I'm just on my way back from a JGI workshop on metagenome informatics, and I thought I'd take the opportunity to write up a short review.
The workshop was, frankly, excellent. We saw a bunch of talks on metagenome assembly (my current interest) as well as single-cell sequencing approaches, and …
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As sequencing gets cheaper and cheaper, one would expect the answer for how to best sequence (and assemble!) any given genome would change. Most biologists assume something along these lines: everyone else has achieved some standard coverage (say 10x, or 100x) for their genome, so all we need to do …
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(with Adina Howe, Jason Pell, Rosangela Canino-Koning, and Arend Hintze).
A few weeks ago I blogged a bit about a k-mer filtering system, khmer, that we were using to reduce metagenomic data to a more tractable size by throwing out error-prone reads (see A memory efficient way to remote …
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