Below are the descriptions of files used to run the analyses in the CANDO network interactomics paper.

cando.py - the version of the CANDO python implementation used for all analyses. Current version is available at https://github.com/ram-compbio/CANDO
new-n2v-config.py - the script used to generate the interactomic signatures for the Results detailed in Section 2.1. An example of the required configuration file input ("config") is provided in config/.
complete-n2v-adrs.py - the script used to generate the interactomic signatures via node2vec after the addition of the predicted ADRs
ind-effect2pathways.py - the script used to run the random forest machine learning models for pathway feature importance

The remaining directories house the data required to build the network or run the machine learning models, such as GO annotations, protein-pathways, etc.