Set up as R project with basic Phyloseq functions

dhimmel / fratjuice

Uncovering the microbes of fraternity basements

Creative Commons Zero v1.0 Universal

6 stars 2 forks source link

Set up as R project with basic Phyloseq functions #10

Open richardsprague opened 6 years ago

richardsprague commented 6 years ago

This R project lets you use Phyloseq to analyze the samples. Using the Actino package to convert the JSON directory into Phyloseq objects, I show how to graphically display the taxa info by sample.

Next step is to read the FASTQ files using the DADA2 package.

dhimmel commented 6 years ago

@richardsprague mind if I add a few commits to PR? My commits will focus on defining the environment and addressing some of my other comments.

Let's hold off on additional analyses until this PR gets merged. Just so we make sure your work doesn't get too separated from the state of this repository.