The American Gut Project is compiling processing IPython Notebooks of interesting analyses. This index Notebook provides links to the subsequent Notebooks and will be updated as more analyses are added.

Notebooks working with Sequence Data

• Primary processing pipeline Notebook
• Filter bloom sequences Notebook

OTU Table and Metadata Manipulation

• Preprocessing and Subset Generation Notebook

Analyses Across Categories

• Alpha diversity analysis Notebook
• Shared OTUs Notebook
• Statistical Power and Effect Size Notebook