gcplyr

packageversion CRAN status License: MIT

What this package can do

gcplyr was created to make it easier to import, wrangle, and do model-free analyses of microbial growth curve data, as commonly output by plate readers.

Please send all questions, requests, comments, and bugs to

Installation

You can install the most recently-released version from GitHub by running the following lines in R:

install.packages("devtools")
devtools::install_github("mikeblazanin/gcplyr")

You can install the version most-recently released on CRAN by running the following line in R:

install.packages("gcplyr")

Getting Started

The best way to get started is to check out the online documentation, which includes examples of all of the most common gcplyr functions and walks through how to import, manipulate, and analyze growth curve data using gcplyr from start to finish.

This documentation is also available as a series of pdf vignette files:

  1. Introduction
  2. Importing and transforming data
  3. Incorporating experimental designs
  4. Pre-processing and plotting data
  5. Processing data
  6. Analyzing data
  7. Dealing with noise
  8. Statistics, merging other data, and other resources
  9. Working with multiple plates

Citation

Please cite software as:

Blazanin, Michael. 2023. gcplyr: an R package for microbial growth curve data analysis. bioRxiv doi: 10.1101/2023.04.30.538883.