snakemake/snakemake-wrappers
Oct 2025 – Oct 2025
1 Month active
Languages Used
PythonShellYAML
Technical Skills
BioinformaticsData AnalysisNextflowPython ScriptingSnakemakeSoftware Packaging
Hamdiye Uzuner
PROFILE
Hamdiye Uzuner
Hamdiye Uzuner developed Orthanq integration wrappers for HLA and virus analyses within the snakemake-wrappers repository, focusing on scalable and reproducible haplotype quantification. She designed configuration files, metadata, and wrapper scripts to execute Orthanq commands, ensuring results were correctly written to designated output folders. Using Python, Shell, and YAML, Hamdiye implemented end-to-end tests to validate wrapper behavior, which improved workflow reliability and reproducibility. Her work provided a maintainable framework for integrating Orthanq-driven analyses into Snakemake pipelines, addressing the need for robust, automated haplotype analysis in bioinformatics workflows and supporting downstream data analysis and decision-making processes.
Overall Statistics
Feature vs Bugs
100%Features
Repository Contributions
2Total
Bugs
0
Commits
2
Features
1
Lines of code
718
Activity Months1
Your Network
28 peopleWork History
October 2025
2 Commits • 1 Features
Oct 1, 2025In October 2025, delivered Orthanq integration wrappers for HLA and virus analyses in snakemake-wrappers, including configuration files, metadata, test cases, and wrapper scripts to execute Orthanq commands for haplotype quantification in viral and HLA contexts. Also fixed the output path so Orthanq results (CSV) are written to the designated output folder. Implemented end-to-end tests to validate wrapper behavior, enhancing reproducibility and reliability. This work enables scalable, reproducible haplotype analysis and improves downstream analytics and decision-making within Snakemake pipelines.
2 Commits • 1 Features
Oct 1, 2025In October 2025, delivered Orthanq integration wrappers for HLA and virus analyses in snakemake-wrappers, including configuration files, metadata, test cases, and wrapper scripts to execute Orthanq commands for haplotype quantification in viral and HLA contexts. Also fixed the output path so Orthanq results (CSV) are written to the designated output folder. Implemented end-to-end tests to validate wrapper behavior, enhancing reproducibility and reliability. This work enables scalable, reproducible haplotype analysis and improves downstream analytics and decision-making within Snakemake pipelines.
October 2025
Activity
Loading activity data...
Quality Metrics
Correctness100.0%
Maintainability100.0%
Architecture100.0%
Performance70.0%
AI Usage70.0%
Skills & Technologies
Programming Languages
PythonShellYAML
Technical Skills
BioinformaticsData AnalysisNextflowPython ScriptingSnakemakeSoftware PackagingTestingWorkflow Management
Repositories Contributed To
Overview of all repositories you've contributed to across your timeline