pat-rig/Microbiome_Embeddings

A comparison between novel linear and nonlinear embedding methods for data from the American Gut Project. Project conducted as a student of M.Sc. Machine Learning at University of Tuebingen.

Linear vs. non-linear embeddings for microbiomes

An outline of the repo structure is given in the Appendix of project_report.pdf.

Files with large blocks of uncommented code, such as ./post_process_embeddings/helper_functions.py were taken from https://github.com/MaudeDavidLab/gut_microbiome_embeddings and slightly modified.