Ultimagen/ugbio-utils
Sep 2025 – Sep 2025
1 Month active
Languages Used
PythonShell
Technical Skills
BioinformaticsData AnalysisData VisualizationMachine LearningMatplotlibPython
Ori Hirschberg
PROFILE
Ori Hirschberg
Worked on the Ultimagen/ugbio-utils repository to enhance the SRSNV training pipeline and reporting tools for bioinformatics workflows. Refactored the pipeline in Python and Shell to support new data formats, remove deprecated code, and adjust SNVQ prefactor calculations, improving robustness and maintainability. Updated reporting features by correcting legacy end_unreached values and revising charts to display true positive and false positive distributions, clarifying data interpretation. Expanded and refined unit tests for trinucleotide histogram plotting using Matplotlib, removing outdated cases and broadening coverage. These efforts reduced technical debt, improved data quality, and strengthened test reliability for safer, faster future development.
Overall Statistics
Feature vs Bugs
100%Features
Repository Contributions
4Total
Bugs
0
Commits
4
Features
3
Lines of code
5,442
Activity Months1
Your Network
23 peopleSame Organization
@ultimagen.com10
Shared Repositories
13
Work History
September 2025
4 Commits • 3 Features
Sep 1, 2025September 2025 summary for Ultimagen/ugbio-utils: Delivered significant SRSNV enhancements and test improvements. Refactored the SRSNV training pipeline to align with new data formats, remove deprecated functionality, and adjust SNVQ prefactor calculation, enhancing robustness and maintainability. Improved SRSNV reporting by fixing legacy end_unreached values and updating charts to TP/FP distributions, plus removing a broken LOD plot for clearer analytics. Expanded trinucleotide histogram plotting tests, removing outdated cases and broadening coverage. These changes reduce technical debt, improve data quality and interpretability of reports, and strengthen test reliability for safer deployments and faster future iterations.
4 Commits • 3 Features
Sep 1, 2025September 2025 summary for Ultimagen/ugbio-utils: Delivered significant SRSNV enhancements and test improvements. Refactored the SRSNV training pipeline to align with new data formats, remove deprecated functionality, and adjust SNVQ prefactor calculation, enhancing robustness and maintainability. Improved SRSNV reporting by fixing legacy end_unreached values and updating charts to TP/FP distributions, plus removing a broken LOD plot for clearer analytics. Expanded trinucleotide histogram plotting tests, removing outdated cases and broadening coverage. These changes reduce technical debt, improve data quality and interpretability of reports, and strengthen test reliability for safer deployments and faster future iterations.
September 2025
Activity
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Quality Metrics
Correctness82.6%
Maintainability80.0%
Architecture75.0%
Performance75.0%
AI Usage25.0%
Skills & Technologies
Programming Languages
PythonShell
Technical Skills
BioinformaticsData AnalysisData VisualizationMachine LearningMatplotlibPythonReportingSoftware DevelopmentTest RefactoringTestingUnit Testing
Repositories Contributed To
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