-
checkV paper: https://www.nature.com/articles/s41587-020-00774-7
The checkV database is a superset of GenBank viral. This may improve taxonomic identification for viruses.
Potential problems -- …
-
through complicated magic referenced [here](https://github.com/sourmash-bio/sourmash/issues/1622) and [here](https://github.com/sourmash-bio/sourmash/issues/1577#issuecomment-880602271), the Rust-base…
-
luiz's talk about how we develop/design/evolve sourmash: https://www.youtube.com/watch?v=0jpnP8NtRfc&feature=youtu.be
-
there is some interest in translating between taxonomies (GTDB, NCBI, and maybe LINS), and this is something that we should be able to do somewhat straightforwardly in sourmash.
relevant issues -
…
-
In #2321 and https://github.com/sourmash-bio/sourmash/pull/2322 we delve back into multigather... and I remembered how annoying the CSV output is, in that it is output to the signature `filename` for …
-
for
```
~/sratoolkit.2.8.1-3-ubuntu64/bin/fastq-dump.2.8.1-3 -A SRR1929297 -Z | syrah -k 31 | sourmash compute - -o SRR1929297_syrah.sig
```
```
syrah!
reading sequences and outputting soli…
-
In https://github.com/sourmash-bio/sourmash/issues/2154, we've been talking about how to include taxonomic information in zipfiles, and I've been trying to figure out how that would work at the comman…
-
(copied from https://github.com/sourmash-bio/sourmash/issues/461#issuecomment-1993390314)
Hi Titus @ctb , I don't know whether I could ask the following questions related to this issue, anyway....
…
-
#1159 adds `sourmash sketch dna|protein|translate`. This issue tracks some potential additions to that --
* we could provide additional subcommands, like `sourmash sketch reads`, `sourmash sketch g…
-
@luizirber and I chatted a bit over slack about the new [mastiff](https://github.com/sourmash-bio/mastiff) service he built, which allows ~realtime search of the SRA public metagenomes (!!)
This, i…