Pitt - Miskov-Zivanov Lab
Pinned
Repositories
- VIOLIN Public
VIOLIN (Validating Interactions Of Likely Importance to the Network) is a tool used to automatically classify and judge literature-extracted interactions curated from machine readers by comparing them to existing models. This comparison can help identify key interactions for model extension.
- BioRECIPE Public
The BioRECIPE (Biological system Representation for Evaluation, Curation, Interoperability, Preserving, and Execution) representation format is introduced to facilitate seamless human-machine interaction when creating, verifying, evaluating, curating, and expanding executable models of intra- and intercellular signaling.
- TernaryBody Public
- FIDDLE Public
FIDDLE (Finding Interactions using Diagram Driven modeL Extension) is a tool to automatically assemble or extend models with the knowledge extracted from published literature. The two main methods developed as part of FIDDLE are called Breadth First Addition (BFA) and Depth First Addition (DFA), and they are based on network search algorithms.