Explainable Drug Sensitivity Prediction through Cancer Pathway Enrichment Scores

# run FNN 
python FNN.py -i inputs.txt -o ./output_prefix

Pathway enrichment scores for categorical data (i.e., mutation, copy number variation, and drug targets) were obtained by running the NetPEA algorithm, which is available at: https://github.com/TangYiChing/NetPEA, while pathway enrichment scores for numeric data (i.e., gene expression) was generated with the single-sample Gene Set Enrichment Analsysis (ssGSEA) available here: https://gseapy.readthedocs.io/en/master/gseapy_example.html#3)-command-line-usage-of-single-sample-gseaby

step1. performe

Li, M., Wang, Y., Zheng, R., Shi, X., li, yaohang, Wu, F., & Wang, J. (2019). DeepDSC: A Deep Learning Method to Predict Drug Sensitivity of Cancer Cell Lines. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 1–1.