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sourmash-bio / sourmash

Quickly search, compare, and analyze genomic and metagenomic data sets.
http://sourmash.readthedocs.io/en/latest/
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add more input formats to `sourmash taxonomy prepare` #1669

Open ctb opened 3 years ago

ctb commented 3 years ago
ctb commented 3 years ago

for NCBI taxdump, we would need a source of accessions-to-taxid as well.

Looks like the assembly_summary file, https://github.com/sourmash-bio/databases/issues/7, might be the right place to look.

ctb commented 1 year ago

This is probably a better approach: plugins. https://github.com/sourmash-bio/sourmash/issues/2694