C. Titus Brown
C. Titus Brown
request sent privately: >I am interested in finding strains of an bacteria (say E. Coli) in ~100 metagenomes. What’s the best way to do this? Misc thoughts: * suggest adopting...
here, we are merging all genomes under a given species or genus into a single sketch, representing that species or genus. see https://github.com/ctb/2022-database-covers/pull/4 for code sort of like the cover...
* read kprocessor tables? * download genomes a la genome grist (UPDATE: see https://github.com/ctb/get-some-ncbi-genomes) ref https://github.com/sourmash-bio/sourmash/issues/1353
`sourmash sig merge -h` prints: >Note: `merge` only creates one output file, with one signature in it, in the JSON `.sig` format. yet it uses `sourmash_args.SaveSignaturesToLocation` internally which supports the...
First off, this is definitely an odd situation where undefined behavior is, well, undefined. In brief, when assigning taxonomies using lineages with missing ranks, such as this from the podar...
as of ~November 2023 - info copied from slack and e-mails ;). editable hackmd [here](https://hackmd.io/xlJNkhSgTPaLID6_gQzITg). note: 2023-08-17 is the cutoff date for the 1M metagenomes luiz built this index from....
it looks like it does not, which is surprising to me. Specifically, on one sample (JRH_1) I see in gather output: the recovered matches hit 73.1% of the abundance-weighted query....
esp branchwater plugin
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