ndarci / microbiome-cs226

Final project for Bioinformatics 226 at UCLA. Analyzing the effect of gut microbiome species composition on LDL and HDL cholesterol.

microbiome-cs226

Final project for Bioinformatics 226 at UCLA. Analyzing the effect of gut microbiome species composition on LDL and HDL cholesterol.

John Randazzo, Maddie Murphy, Niko Darci-Maher

Merge data and select baseline samples

Rscript cleanup.R

Run dimensionality reduction

Rscript PCA.R

Run penalized regression analysis

Rscript model_comparison.R

Compute dysbiosis scores and regress on them

Rscript dysbiosis_analysis.R