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gtdb mapping and versioning #10

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hariszaf opened this issue Aug 1, 2024 · 0 comments
Open

gtdb mapping and versioning #10

hariszaf opened this issue Aug 1, 2024 · 0 comments

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@hariszaf
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hariszaf commented Aug 1, 2024

The gtdbSpecies2ncbiId2accession.tsv looks like this:

userXxxx:mappings$ head gtdbSpecies2ncbiId2accession.tsv 
Cenarchaeum symbiosum	414004	GCA_000200715.1
Pyrobaculum oguniense	698757	GCA_000247545.1
Methanolobus psychrophilus	1094980	GCA_000306725.1

If I add in in this file strain names and their NCBI ids pointing to the representative genomes they correspond to, would it lead to any error?
If not, maybe that's a good way to keep up with the new GTDB version without running every year the calculations as storage will go high if we do not think of any other way to keep track of the complements.

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