Wiki Page

Visit the wiki page describing all MLRepo learning tasks.

Available Tasks

Download a single file containing all available tasks

Bacteremia

• bacteremia vs no bacteremia

Diet

• high fat vs low fat diet

• animal vs plant diet, last diet day

Antibiotics

• chlortetracycline vs control, cecal

• chlortetracycline vs control, fecal

• penicillin vs vancomycin, cecal

• penicillin vs vancomycin, fecal

Age

• elderly vs young

• infant age

IBD

• control vs cd, ileum

• control vs cd, rectum

• pcdai using baseline cd ileum

• pcdai using baseline cd rectum

• healthy vs cd, stool

• healthy vs uc, stool

Gender

• male vs female, stool

• male vs female, usa

Vaginal

• white vs black, vaginal

• black vs hispanic, vaginal

• low vs high nugent category

• nugent score

• ph, vaginal

Geography

• malawi vs venezuela, adults only

• us vs malawi, adults only

Body Habitat

• gastrointestinal vs oral

• stool vs tongue

• subgingival vs supragingival plaque

Cancer

• healthy vs tumor biopsy, paired

Obesity

• lean vs obese, mz/dz/mom

Diabetes

• normal vs diabetes glucose tolerance

• impaired vs diabetes glucose tolerance

• healthy vs type 2 diabetes

Cirrhosis

• healthy vs cirrhosis

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Interested in adding a new dataset or task? See our instructions

If you use this package, make sure to cite at

@article{vangay2019microbiome,
  title={Microbiome Learning Repo (ML Repo): A public repository of microbiome regression and classification tasks},
  author={Vangay, Pajau and Hillmann, Benjamin M and Knights, Dan},
  journal={Gigascience},
  volume={8},
  number={5},
  pages={giz042},
  year={2019},
  publisher={Oxford University Press}
}