Investigate and improve hgvs performance#
| Difficulty | Expected Duration | Possible Mentors |
|---|---|---|
| Medium | 175h | @reece |
Summary#
The goal of this project is to collect profiling data for the hgvs package, identify and triage opportunities for improvement, and to undertake some of those improvements.
Community Outcomes#
Improving the performance of hgvs will create a better experience for users and may enable new uses, such as on-the-fly variant translation in user interfaces.
Expected Results / Deliverables#
- Collect and present performance profiling data for common operations in hgvs
- Discuss opportunities for improvement with the community in order to prioritize performance improvements
- Implement several performance improvements and collect data to demonstrate the value
Required and Desired Skills#
- Deep python experience, including performance profiling
- Ability to visualize code paths and identify areas of improvement
Benefits to Intern#
The intern will gain familiarity with the processing of sequence variants and refine his/her experience with performance improvements in code.
How to apply#
Students applying to this project should briefly describe their vision for this project, highlight their existing skills and the skills they would need to learn, and estimate an implementation timeline.