cuperdec

R build status Codecov test coverage DOI CRAN status

R package to generate ‘Cumulative Percent Decay’ curves, with optional filtering functions, for microbial taxonomic profiles.

Example of Cumulative Percent Decay curves

These curves aim to represent the level of ‘endogenous’ content of microbiome samples, such as ancient dental calculus, to help to identify samples with low levels of preservation that should be discarded for downstream analysis.

Installation

This package is still in development. To install for testing, you can run the following

# install.packages("devtools")
devtools::install_github("jfy133/cuperdec")

Documentation

Please see vignettes/cuperdec-intro.Rmd.

Acknowledgments

Irina Velsko (@ivelsko), Zandra Fagerness (@ZandraFagernas), and Lena Semerau for testing and bug reports.