README.md

In fasterius/ATRADA: Automated Turbidity Reduction Assay Data Analysis

ATRADA

Overview

ATRADA (Automated Turbidity Reduction Assay Data Analysis) is an R-package for analysing TRA data in an automated and easy-to-use manner. It is currently in the very early stages of development and is thus NOT ready for any sort of use beyond testing. Use with cauton, in other words.

ATRADA's features include:

• Parsing of TRA outputs from multiple compatible instruments
• Fitting of the activity from each well to a sigmoidal curve and plotting the results in a 96-well format for inspection
• Calculation of the specific enzymatic activity with both numerical and graphical outputs

So far, only the first two points are implemented, and only using a basic fitting methodology. Future versions of ATRADA will evaluate other methods as as include the last planned feature.

Installation

ATRADA is currently only available here on GitHub, and can easily be installed using the devtools R-package:

# install.packages("devtools")
devtools::install_github("fasterius/ATRADA")

Usage

Using ATRADA is simple. All you need is the installed package itself and your TRA data in a CSV file. Analysing the maximal activity in each well of your experiment requires very little code:

# Load the ATRADA package
library("ATRADA")

# Read the TRA data
data <- read_tra_data("your_tra_data.csv")

# Fit and plot the per-well activites
fit_activity(data, "wells.png")

License

ATRADA is released with a MIT licence. ATRADA is free software: you may redistribute it and/or modify it under the terms of the MIT license. For more information, please see the LICENCE file that comes with the ATRADA package.

fasterius/ATRADA documentation built on May 31, 2019, 2:23 p.m.