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title: Characterisation of a Putative Agent of Horizontal Gene Transfer Encoded by a Bacterial Prophage Region author: Y3877831

Overview

This project was completed as a requirement for the University of York, Department of Biology, M-level module: Data Science option of BIO00058M Data Analysis. The project tidies, processes, and analyses data obtained from University of York, Department of Biology, C-level module: Bioscience Techniques strand of BIO00058I Laboratory and Professional Skills for Bioscientists II.

Requirements

• R version 4.1.2 or higher\
• RStudio
• The output of sessionInfo() can be found in Session Information.
• CRAN packages: tidyverse, plotly, ggpubr, RefManageR, kableExtra, showtext, devtools.
• Github package: wordcountaddin.
• Required packages can be downloaded using the following code:

# Required Packages
cran_packages <- c("tidyverse", "plotly", "ggpubr", "RefManageR", "kableExtra", "showtext", "devtools", "wordcountaddin")

# Extract not installed packages
not_installed <- cran_packages[!(cran_packages %in% installed.packages()[ , "Package"])]

# Install not installed packages from CRAN
if(length(not_installed!="wordcountaddin"))install.packages(not_installed!="wordcountaddin") 

# Install not installed packages from Github
if(length(not_installed=="wordcountaddin"))devtools::install_github("benmarwick/wordcountaddin", type = "source", dependencies = TRUE)

Issues

• If on Mac, you will need to download the Montserrat font to use alternative fonts showtext functions. This article explains how to do this.
• Some plots are not interactive due to plotly being incompatible with ggplot2's stat functions.

Materials

'Characterisation of a Putative Agent of Horizontal Gene Transfer Encoded by a Bacterial Prophage Region' by Y3877831 is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.