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Gold Stamp IDs to SRA IDs convertion of the metagenomes of GEMs

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posted on 2020-11-23, 13:01 authored by Moritz BuckMoritz Buck
A small simple JSON-file containing the mapping from Gold Stamp IDs from the IMG/JGI database to the SRA IDs useable by fastq-dump to download the corresponding metagenomes from NCBI. <div>The GoldIDs are the ones from the Supplemental Table 1 from <i>Nayfach, S., Roux, S., Seshadri, R. et al. A genomic catalog of Earth’s microbiomes. Nat Biotechnol (2020). <a href="https://doi.org/10.1038/s41587-020-0718-6" rel="nofollow">https://doi.org/10.1038/s41587-020-0718-6</a></i>, that have been submited to the Short Read Archive. </div><div>The code used to generate this mapping is available at https://github.com/moritzbuck/jgi2sra_mapper</div><p></p>

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Swedish University of Agricultural Sciences

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moritz.buck@slu.se

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