- separates node-based graph creation and compression from edge-based graph creation
- moves usage of edge-based node data-container to pre-processing as well, unifying access to node-based data
- single struct instead of separate vectors for annotation data in engine (single place of modification)
- moves collapse into a dedicated set of functions / files
- make collapse scenarios distinct (slight performance cost)
- reduce verbosity for short name segments (now actually working, was supposed to do so before)
removes duplicated includes
removes unused includes
eliminates dedicated toolkits that resulted in circular dependencies
moves functionality close to data, where possible
