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syrah / 400k data set #10

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ctb opened this issue Oct 27, 2022 · 2 comments
Open

syrah / 400k data set #10

ctb opened this issue Oct 27, 2022 · 2 comments

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@ctb
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ctb commented Oct 27, 2022

associated with: http://ivory.idyll.org/blog/2017-sourmash-sra-microbial-wgs.html

see https://github.com/dib-lab/soursigs/blob/3db6162579e0efbc4fe8f181a7f08c3aee391d97/Snakefile#L149

http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?save=efetch&db=sra&rettype=runinfo&term=(("biomol dna"[Properties] NOT amplicon[All Fields])) AND "bacteria"[orgn:__txid2] NOT metagenome
@ctb
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ctb commented Nov 3, 2022

updated:

https://www.ncbi.nlm.nih.gov/sra/?term=%22biomol+DNA%22+and+not+amplicon+%22bacteria%22%5Borgn%3A__txid2%5D+and+not+metagenomic

@ctb
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ctb commented Nov 18, 2022

might be interesting to support microbial euks and archaea too! and maybe viruses?

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