This repository contains code and the data for reproducing results and figures in the associated manuscript: "Mismatch Repair-Deficient strains of Pseudomonas aeruginosa reveal novel pathways of resistance to combinations of cephalosporin antibiotics and beta-lactamase inhibitors". 1_GENOMIC ######### Script and test data to process variant calling and variant annotation 2_RNASEQ ######## Script and test data for transcriptomic analysis 3_CONSERVATION ############## Script and data to generate gene conservation scores 4_FIGURES ########################### Script and data to generate figures from the paper.