← Search

Data · dataset · 2020

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

Listed in SciLifeLab Data Repository

Description

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="doi.org/10.1038/s41587-020-0718-6" rel="nofollow">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 github.com/moritzbuck/jgi2sra_mapper</div><p></p>

Links

Where it is published

Catalogue records · 1

Topics

Inferred from text
Tabular 65%

Related

Provenance · 1 source records, 9 field assertions
SourceKeyLast seenRaw
SciLifeLab Data Repositoryoai:figshare.com:article/132468175 h agoJSON v1
FieldAssertionExtractorEvidence
access_levelsource · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0
concepts[field].anzsrc:field:310703mapping · figshare scilifelab sevocabulary-mapper@1.0.0keywords['Microbial ecology']
concepts[field].local:field:earth-environmentalmapping · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0
concepts[field].local:field:life-sciencesmapping · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0
concepts[modality].local:modality:tabularenrichment · figshare scilifelab sekeyword-concept-rules@1.0.0title+description (65%)
descriptionsource · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0/metadata/dc/description
licensesource · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0/metadata/dc/rights
publication_datesource · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0
titlesource · figshare scilifelab seconnector:figshare_scilifelab_se@1.0.0/metadata/dc/title