This is the final project for @jgscott's SDS 385 course for myself and @raghavshroff.
The main write-up can be found in final-write-up.pdf.
There are two sets of data for this project, master.csv and master_countedByKegg.csv.
These are the "master" and "grouped" data sets in the final paper.
The code we used for analysis can be found in final_master.Rmd and final_kegg.Rmd,
which are RMarkdown documents containing both R code and markdown text. The code
is effectively the same, save some constants, and is separated more for our
own convenience rather than long-term use. Each of these is associated
with a .nb.html and .pdf file that contain the formatted output.
We also used @jgscott's SGD logistic regression code as it better handled the intercept compared to @eaott's code from earlier in the course which shrunk the intercept toward zero.