Welcome to ACCORDION’s documentation!

ACCORDION (ACCelerating and Optimizing model RecommenDatIONs) is novel tool and methodology for rapid model assembly by automatically extending dynamic network models with the information published in literature. This facilitates information reuse and data reproducibility and replaces hundreds or thousands of manual experiments, thereby reducing the time needed for the advancement of knowledge.

ACCORDION objectives

1. Extending dynamic network models by combining clustering and path finding with model testing on a set of predefined desired system properties

2. Evaluating the effect of published literature and machine reading when automatically reconstructing an existing model

ACCORDION architecture

Flow diagram of the ACCORDION processing steps and outputs.

ACCORDION conceptual overview

Applications

The primary application area of ACCORDION is dynamic and causal network models.

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Contents

• General Functions
  • loading baseline model
  • matching element names
  • parsing extension
  • merging clusters
  • generating directed graph
  • indexing model rows
  • extending model by cluster
• Functions Related to Clustering
  • main clustering function
  • building extended graph
  • recalling MCL algorithm
  • translating baseline to edges
  • generating extension candidates
• Installation
  • Cloning Repo
  • Building MCL Code
• License
• Funding
• Citation