├── .gitignore ├── README.md ├── cluster ├── batchPresil.conf ├── data │ ├── G_eco.graphml │ ├── G_hsa.graphml │ └── G_sce.graphml ├── jobSub_presilience.sh ├── presilience.py └── presilience_batch.py ├── code ├── .ipynb_checkpoints │ └── 01_Intro_Network_Resilience-checkpoint.ipynb ├── 01_Intro_Network_Resilience.ipynb ├── 02_Protein_Network_Resilience.ipynb ├── 03_Prospective_Resilience.ipynb ├── presilience.py └── utilities.py ├── data ├── G_eco.graphml ├── G_hsa.graphml ├── G_sce.graphml ├── clusterdata │ └── cluster_data.json ├── edgelist_ecoli.csv ├── edgelist_human.csv └── edgelist_yeast.csv └── figs ├── pdfs ├── 3panelSapiens_modularience_m.pdf ├── 3panelSapiens_presilience_m.pdf ├── attachment_mechanisms.pdf ├── clusterdata_Modularience.pdf ├── clusterdata_Presilience.pdf ├── clusterdata_PresilienceX.pdf ├── resilience_intro.pdf ├── resilience_intro_threegraphs.pdf └── ribosome_networks_with_gex_deg_data.pdf └── pngs ├── attachment_mechanisms.png ├── 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