Software
My research code is available on Github. These include tools for:
- ML:
- Interpretable ML, centered on the InterpretML package.
- ContextualizedML unifies all sorts of context-specific analysis including context-specific regression, context-specific correlation and context-specific networks for analysis of heterogeneous populations.
- Functional Retrofitting is a scalable method to combine distributional and relational data.
- Precision Medicine:
- clEHRity is a framework for automated deconfounding on EHRs.
- Computational Genomics:
- scContextualized provides utilities for contextualized analysis of biological data, scaling to the requirements of large single-cell datasets.
- drPCA is a framework for estimating principal components which differentiate sets of case/control samples.
- GO_Translator is a set of simple utility functions for the Gene Ontology terms.
- SnareSeq contains preprocessed versions of the multi-omic dataset.
- Academic Misc:
- ConferenceCountdown is a website for counting down to conference deadlines. Live here for ML/CompBio conferences.
- Covid19-LatentCases estimates the total infections from limited diagnostic tests.
- MyTwilio is a simple helper to text yourself from Python (for instance, add a line to get notified when your long-running job finishes).