Scripts for "Starvation response strategies impact the interaction dynamics of human gut bacteria: a study of Bacteroides thetaiotaomicron and Roseburia intestinalis".
Pre-processing folder contains all the scripts used for the aligment with Salmon as well as a script for a quality trimming with fastp. get_COGs_from_NCBI.py contains the python scripts used for the annotation of the genomes with KEGG, NCBI and eggNOGG.
The file model_RI_BT.m contains the Matlab implementation of the kinetic model that describes the interaction dynamics of R. intestinalis and B. thetaiotaomicron in the absence and presence of mucin.