Update: Sep 2021: netDx is now maintained at https://github.com/realpailab/netdx.

Development in this repo now frozen.

netDx is a general-purpose algorithm for building patient classifiers by using patient similarity networks as features. It excels at interpretability and handling missing data. It also allows custom grouping rules for features, notably grouping genes into pathways. It integrates with RCy3 for network visualization of predictive pathways.

As of February 2020, netDx is available via the BioConductor repository. Visit http://bioconductor.org/packages/release/bioc/html/netDx.html to install the package and see worked examples.

Contact Shraddha Pai at [email protected] in case of questions.

References:

1. Pai S, Hui S, Isserlin R, Shah MA, Kaka H and GD Bader (2019). netDx: Interpretable patient classification using patient similarity networks. Mol Sys Biol. 15: e8497. Read the paper here.
2. Pai S, Weber P, Isserlin R, Kaka H, Hui S, Shah MA, Giudice L, Giugno R, Nøhr AK, Baumbach J, GD Bader (2021). netDx: Software for building interpretable patient classifiers by multi-'omic data integration using patient similarity networks. F1000 Research. 9:1239.