So, there this guy, Matt Welsh. And he left Harvard to go to Google. OK.
Now he's baaaack, to point out that academia isn't that rosy.
Yep. He's not wrong.
Were I in a sarcastic mood, I would say something like "ohmigod, Matt Welsh is pointing out that …
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I was a reviewer of the PLoS One paper, An Integrated Pipeline for de Novo Assembly of Microbial Genomes, and just recently came across the review again. I didn't post it at the time, but heck, why not now? ;)
Note that for our recent microbial genomes assembly workshop we wrote …
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Software installation is a real problem.
I'm writing this as I return from my fourth Software Carpentry workshop, or -- if you count the one I ran at LLNL almost a decade ago -- my fifth one. This workshop was taught with Karen Cranston and Rich Enbody, both of them very experienced …
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Is khmer evolving?
The khmer project is our software package to work with short reads, and it enables a lot of things like k-mer counting and de Bruijn graph exploration and modification. As data volume grows, interest in partitioning and digital normalization is also growing. But we haven't really talked …
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On the angenmap mailing list, I wrote:
Overall, I see little justification for believing that our current system [ of peer review ] is particularly good. It's just comfortable, especially for the people who have been molded by it.
Chris Moran responded:
read moreI frequently hear these assertions about weak correlations, false negative …
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Continuing in the saga of "what do sequencing errors do to our de Bruijn graph density measure" (read the first post here), I have some new results.
The conclusion of the first post was that on random (non-real) genomes, both with and without repeats, we see that de Bruijn graph …
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