An implementation of alignment in Network-Extracted Ontology algorithm

This package facilitates application of ontology alignment in Network-Extracted Ontology (NeXO) algorithm in R. This algorithm was originally implemented in C++ by Michael Kramer for NeXO algorithm found by Janusz Dutkowski¹. The inputs are computed and reference ontologies as source-target-relation data frames.

Quick Start alignontology R

Read vignette for simple example in R

Download R script

Reference manual

References

[1] Dutkowski J, Kramer M, Surma MA, Balakrishnan R, Cherry JM, Krogan NJ, Ideker T. A gene ontology inferred from molecular networks. Nat Biotechnol. 2013 Jan;31(1):38-45. doi: 10.1038/nbt.2463. PMID: 23242164 C++ program