The below is a recipe for subsetting a high-coverage data set to a
given average coverage. This differs from digital normalization
because the relative abundances of reads should be maintained -- what
changes is the average coverage across all the reads.
Uses for this recipe include subsampling reads from a super-high ...
In recent days, we've gotten several requests, including two or three
on the khmer mailing list,
for ways to extract shotgun reads based on their coverage with respect
to the reference. This is fairly easy if you have an assembled genome,
but what if you want to avoid doing ...
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).
Every month, Bjørn Østman
finds another sucker^W^W^W organizes a Carnival of Evolution blog post, that does a
roundup of blogs on evolution from a previous month. This month, I'm
hosting it -- it's a bit late, due to some teaching duties, so