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If this is 16S sequencing just follow the standard workflows like Qiime2.https://docs.qiime2.org/2024.2/tutorials/overview/
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Thanks changing the tmp dir fixed the out of disk space error for me as well.
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Download services for PDB are described on this page: https://www.rcsb.org/docs/programmatic-access/file-download-services
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Since BUSCO results are almost identical but the assembly sizes differ significantly, I suppose that the difference between the assemblies …
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Ok I made this into an answer. Could you please accept it as such.
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