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Metagenomic curated data

This is a python repack of the curated data from the Metagenomic Data Repository.

Please refer to the study list and study metadata for the list of available datasets.

Sample usage 

ds = datasets.load_dataset("wwydmanski/metagenomic_curated", "EH1726")
X = np.array([list(i.values()) for i in ds['train']['features']])
y = np.array([x['study_condition'] for x in ds['train']['metadata']])

Finding a relevant dataset EHID

The easiest way to find an interesting study is via study metadata. After that, you can find corresponding EHIDs by referring on the https://experimenthub.bioconductor.org/title/{study_name} page.

Let's say that the ThomasAM_2018a study piqued your curiosity - it means that you will be able to find all relevant datasets on the https://experimenthub.bioconductor.org/title/ThomasAM_2018a website.