I was a reviewer on Determining the quality and complexity of next-generation sequencing data without a reference genome by Anvar et al., PDF here. Here is the top bit of my review.
One interesting side note - the authors originally named their tool kMer and I complained about it in my …
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As I mentioned, I am hoping to significantly scale up my training efforts at UC Davis; it's one of the reasons they hired me, it's a big need in biology, and I'm enthusiastic about the whole thing! A key point is that, at least at the beginning, it may replace …
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I just finished reading Svante Paabo's autobiography, Neanderthal Man: In Search of Lost Genomes. The book is perfect -- if you're a biologist of any kind, you'll understand most of it without any trouble, and even physicists can probably get a lot out of the story (heh).
The book describes Svante …
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The fifth annual Analyzing Next Generation Sequencing Data workshop just finished - #ngs2014. As usual the schedule and all of the materials are openly available.
tl; dr? Good stuff.
We've been running this thing since 2010, and we now have almost 120 alumni (5 classes of roughly 24 students each). The …
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A few months back, we submitted a paper, These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure, to PLoS One. We got the (signed) reviews back in December, and I asked the reviewers if I could post their reviews publicly. They …
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We've just posted a new paper to arXiv: "These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure." We'll be submitting it to PLoS One after we wait a few days for comments from the Twittersphere and/or on Haldane's Sieve.
The …
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So, we've been running this course on NGS data analysis. And it's been fun and all. But a lot of work.
About a year ago, I thought hard about whether or not I wanted to apply for renewal, and ended up applying again. You can see the final grant if …
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