1
mmir
2
Introduction
2.1
Objective
2.2
What is an MMI?
2.3
Need
3
R Overview
3.1
R Packages
3.2
R Functions
3.3
Tidyverse
4
mmir Setup
4.1
Load the Package
5
Required Data Format
5.1
Required Data Format Example
5.2
Data Preparation for Integration with dplyr
6
Metrics
6.1
Metric Function List
6.2
Metric Function Arguments
6.3
Metric Function Output
7
Richness Metrics
7.1
Community Richness
7.2
Subset Richness
8
Diversity Metrics
8.1
Community Diversity
8.2
Subset Diversity
9
Relative Abundance (%) Metrics
10
Sequence Through Multiple Metrics
11
Bringing it All Together
11.1
Metric Calculation
11.2
Metric Selection
11.2.1
Train/Test Split
11.2.2
Preprocess
11.2.3
Model
12
Acknowledgements
13
Contact Information
mmir: An R-package for Simple Biological Metric Calculations
13
Contact Information
Name:
Zachary M. Smith
Email:
zachary.smith2@dec.ny.gov
GitHub:
https://github.com/zsmith27
mmir:
https://github.com/zsmith27/mmir