3. dnet- dnet is an open-source R package for integrative analysis of digitised data in terms of network, ontology and evolution, including: identification and visualisation of gene-active dynamic subnetworks; random walk with restart; and enrichment analysis
Development Status : 5 - Production/Stable [Filter]
4. dcGOR- dcGOR is a package for analysing domain-centric ontologies and annotations. It includes: enrichment analysis and visualisation; construction of a domain (semantic similarity) network; significance analysis for a contact network.
5. 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.
8. 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.