Benchmarking scripts for assessing assemblies, used in the Assemblathon 1 project
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Work on data models and APIs for graph structures that represent the human reference genome plus common human genetic variants. Includes mapping to a reference genome, and standardization of the mechanism for referring to variants.
Library for constructing pinch graphs and cactus graphs
Library of matching and ordering algorithms, used for "reference problem"
Prototype implementation of SQG parser in Python