R script for merging files antibiotics and phenotypic sensitivities from SISTR, MLST, ABRicate and phenotypic data into their respective antibiotic classes
Perl script for going through each antibiotic file and printing out the number of discordant and concordant, the serovars and the resistance patterns associated with it. Another version of this tool is written in python3.
R scripts for graphs made in this study. Includes heatmap, vertical and horizontal barplots, stacked bar plots, donutplots and networks