Code, data and analysis for construction and network analysis of chemokine signalling networks in inflammatory disease and further structural analysis of chemokine network inhibitors with AF3

Code, data, and analysis for "Robust and redundant chemokine signalling networks drive immune cell trafficking in human immunoinflammatory disease" Some large */data directories will need to be unzipped to run the code. Order to execute code directories in: 1. scRNA-seq 2. networks 3. quantify_redundancy 4. correlate_abundance_with_redundancy 5. show_extinction_lines_overlapping 6. compare_robustness_from_redundnacy 7. drugs 8. create_drugs_comparison_fig 9. af3_runs 10. model_complexes_compare_with_experiment 11. make_msa_fig 12. evasins_flex Machine environment files used to run scripts in each directory can be found in each directory as env_info.json. Note: running the scripts will overwrite these. Conda environment files used to run scripts in each directory can be found in each directory as conda_env.yaml. Note: running the scripts will overwrite these. In scRNA_seq/data/raw/geo the following data must be secured from the GEO to perform the scRNAseq analysis. (~30GB) GSE173706_RAW GSE202379_RAW GSE214695_RAW GSE234077_RAW