One of the uses that we are most interested in MinHash sketches for is the indexing and search of large public, semi-public, and private databases. There are many specific use cases for this, but the basic goal is to be able to find data sets by content queries, using sequence …
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This is an update to last week's blog post, "Efficiently searching MinHash Sketch collections".
Last week, Thanksgiving travel and post-turkey somnolescence gave me some time to work more with our combined MinHash/SBT implementation. One of the main things the last post contained was a collection of MinHash signatures of …
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There is an update to this blog post: please see "Quickly searching all the microbial genomes, mark 2 - now with archaea, phage, fungi, and protists!
Note: This blog post is based largely on work done by Luiz Irber. Camille Scott, Luiz Irber, Lisa Cohen, and Russell Neches all collaborated on …
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Update: Zenodo will remove content upon request by the owner, and hence is not suitable for long-term archiving of published code and data. Please see my comment at the bottom (which is just a quote from an e-mail from a journal editor), and especially see "Ownership" and "Withdrawal" under Zenodo …
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Our first JOSS submission (paper? package?) is about to be accepted and I wanted to enthuse about the process a bit.
JOSS, the Journal of Open Source Software, is a place to publish your research software packages. Quoting from the about page,
The Journal of Open Source Software (JOSS) is …read more
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(Please contact us at bnsacks@ucdavis.edu if you are interested in access to any of this data. We're still working out how and when to make it public.)
The tule elk (Cervus elaphus nannodes) is a California-endemic subspecies that underwent a major genetic bottleneck when its numbers were reduced …
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