0. Variant Pattern Analyzer- VPA (Variant Pattern Analyzer) is an R package for prioritizing variants with user-specified frequency pattern from multiple study subjects in next generation sequencing study.
4. Mixed-pair mutual information estimators- Fast calculation mutual information for comparisons between all types of variables including continuous vs continuous, continuous vs discrete and discrete vs discrete. Also provides jackknife bias correction and tests for association.
5. Benchmarking genomic data integration- Comparison pipeline for multi-platform data integration algorithms for functional genomics studies. Provides tools to compare performance between publicly available implementations
8. TopKLists- The package includes tools for inference, aggregation, and visualization of multiple ranked lists. Consolidated information from two or more such lists comprising the same set of objects can be obtained. Incomplete rankings and partial lists are allowed.