AGP data for the project "Over-optimism in unsupervised microbiome analysis"

<p>Datasets from the American Gut Project (AGP) that were used by Ullmann et al. for the research project &quot;Over-optimism in unsupervised microbiome analyis&quot;.</p> <p>The datasets were published by McDonald et al.:</p> <p>McDonald D, Hyde E, Debelius JW, Morton JT, Gonzalez A, Ackermann G,<br> et al. American gut: an open platform for citizen science microbiome research.<br> Msystems. 2018;3(3). DOI: <a href="https://doi.org/10.1128/mSystems.00031-18">https://doi.org/10.1128/mSystems.00031-18</a></p> <p>We accessed the files otu_table__BODY_HABITAT_UBERON_feces_json.biom&nbsp; and metadata__BODY_HABITAT_UBERON_feces__.txt at ftp://ftp.microbio.me/AmericanGut/ag-2017-12-04.</p> <p>The phyloseq object ag.genus.rds results from these files after preprocessing. (For the preprocessing code, see our Github repository.)&nbsp;</p>