HealthRex/CDSS
Oct 2024 – Sep 2025
8 Months active
Languages Used
SQLJSONJupyter NotebookMarkdownPython
Technical Skills
Database ManagementSQL Query OptimizationData AnalysisData EngineeringDatabaseDatabase Query Optimization
Fatemeh Amrollahi
PROFILE
Fatemeh Amrollahi
Over eight months, contributed to HealthRex/CDSS by building and refining clinical data analytics and machine learning pipelines, focusing on antimicrobial stewardship and decision support. Developed SQL-based data engineering workflows for time-to-event analysis, antibiotic susceptibility reporting, and microbiology analytics, emphasizing data quality and reproducibility. Implemented Python and Jupyter Notebook solutions for datetime standardization, embedding extraction from clinical notes, and LLM-based blood culture classification. Enhanced repository hygiene through documentation scaffolding, modularization, and targeted code cleanup. Leveraged technologies such as SQL, Python, and BigQuery to streamline data preparation, improve analytics readiness, and enable reproducible ML experiments, supporting faster onboarding and robust clinical insights.
Overall Statistics
Feature vs Bugs
92%Features
Repository Contributions
86Total
Bugs
2
Commits
86
Features
23
Lines of code
134,969
Activity Months8
Your Network
14 peopleSame Organization
@eng.ucsd.edu2
Shared Repositories
12
WenyuanChen1326Member
FatemeMember
Francois GrolleauMember
FatemeMember
Jonathan ChenMember
manojmaddaliMember
Ruoqi LiuMember
Ruoqi LiuMember
Sandy ChenMember
Work History
September 2025
14 Commits • 2 Features
Sep 1, 2025September 2025 monthly summary for HealthRex/CDSS: Delivered end-to-end ML/AI pipelines for clinical notes processing and blood culture data classification, implemented robust notebooks and documentation, and performed targeted repository cleanups. Focused on business value: enabling faster, more accurate clinical decision support and reproducibility across data pipelines. Key achievements are summarized below.
14 Commits • 2 Features
Sep 1, 2025September 2025 monthly summary for HealthRex/CDSS: Delivered end-to-end ML/AI pipelines for clinical notes processing and blood culture data classification, implemented robust notebooks and documentation, and performed targeted repository cleanups. Focused on business value: enabling faster, more accurate clinical decision support and reproducibility across data pipelines. Key achievements are summarized below.
September 2025
August 2025
43 Commits • 10 Features
Aug 1, 2025August 2025 performance highlights for HealthRex/CDSS focused on documentation governance, repository readiness, and baseline project scaffolding to accelerate onboarding and future feature work. No critical bugs reported this month; the emphasis was on delivering maintainable documentation, a solid project skeleton, and deployment/readiness groundwork to unlock faster delivery and clearer contributor guidance.
August 2025
43 Commits • 10 Features
Aug 1, 2025August 2025 performance highlights for HealthRex/CDSS focused on documentation governance, repository readiness, and baseline project scaffolding to accelerate onboarding and future feature work. No critical bugs reported this month; the emphasis was on delivering maintainable documentation, a solid project skeleton, and deployment/readiness groundwork to unlock faster delivery and clearer contributor guidance.
April 2025
10 Commits • 2 Features
Apr 1, 2025April 2025 monthly summary for HealthRex/CDSS: Improved data quality and reproducibility in antimicrobial stewardship analytics across time-to-event filtering, antibiotic susceptibility preprocessing, and documentation. Key changes include consolidating time-to-event filtering fixes across multiple SQL artifacts to ensure only valid preceding events are counted, creating inpatient/outpatient antibiotic susceptibility preprocessing notebooks, and adding comprehensive documentation to enable consistent usage of the data preprocessing pipeline. These changes reduce false positives in stewardship dashboards and accelerate onboarding for data scientists.
10 Commits • 2 Features
Apr 1, 2025April 2025 monthly summary for HealthRex/CDSS: Improved data quality and reproducibility in antimicrobial stewardship analytics across time-to-event filtering, antibiotic susceptibility preprocessing, and documentation. Key changes include consolidating time-to-event filtering fixes across multiple SQL artifacts to ensure only valid preceding events are counted, creating inpatient/outpatient antibiotic susceptibility preprocessing notebooks, and adding comprehensive documentation to enable consistent usage of the data preprocessing pipeline. These changes reduce false positives in stewardship dashboards and accelerate onboarding for data scientists.
April 2025
March 2025
1 Commits • 1 Features
Mar 1, 2025March 2025 monthly summary for HealthRex/CDSS: Delivered a reusable SHC Datetime Data Standardization Notebook to organize and standardize datetime data in the SHC core dataset. The notebook can list available BigQuery tables in the dataset, back up existing tables, identify string columns and convert them to datetime/date formats, and convert timestamp columns from Pacific Time to UTC to ensure consistent, analysis-ready datetime information. This work reduces data wrangling time, improves cross-source data comparability, and strengthens analytics reliability for SHC initiatives. Technologies demonstrated: Python, Jupyter notebooks, BigQuery integration, timezone handling, and data provenance via table backups.
March 2025
1 Commits • 1 Features
Mar 1, 2025March 2025 monthly summary for HealthRex/CDSS: Delivered a reusable SHC Datetime Data Standardization Notebook to organize and standardize datetime data in the SHC core dataset. The notebook can list available BigQuery tables in the dataset, back up existing tables, identify string columns and convert them to datetime/date formats, and convert timestamp columns from Pacific Time to UTC to ensure consistent, analysis-ready datetime information. This work reduces data wrangling time, improves cross-source data comparability, and strengthens analytics reliability for SHC initiatives. Technologies demonstrated: Python, Jupyter notebooks, BigQuery integration, timezone handling, and data provenance via table backups.
February 2025
6 Commits • 3 Features
Feb 1, 2025February 2025 (2025-02) monthly summary for HealthRex/CDSS focused on data engineering foundations for ML-ready inpatient antibiotic susceptibility datasets, documentation scaffolding, and repository maintenance. Delivered end-to-end data preparation capabilities and prepared the codebase for reproducible ML experiments, while reducing technical debt through cleanup of outdated components.
6 Commits • 3 Features
Feb 1, 2025February 2025 (2025-02) monthly summary for HealthRex/CDSS focused on data engineering foundations for ML-ready inpatient antibiotic susceptibility datasets, documentation scaffolding, and repository maintenance. Delivered end-to-end data preparation capabilities and prepared the codebase for reproducible ML experiments, while reducing technical debt through cleanup of outdated components.
February 2025
December 2024
4 Commits • 2 Features
Dec 1, 2024December 2024 performance summary for HealthRex/CDSS focusing on key features delivered, major bugs fixed, and overall impact. Delivered data-quality improvements for antibiotic susceptibility reporting and strengthened risk controls around schema updates. These changes enhance clinical decision support accuracy, reporting reliability, and downstream analytics capabilities.
December 2024
4 Commits • 2 Features
Dec 1, 2024December 2024 performance summary for HealthRex/CDSS focusing on key features delivered, major bugs fixed, and overall impact. Delivered data-quality improvements for antibiotic susceptibility reporting and strengthened risk controls around schema updates. These changes enhance clinical decision support accuracy, reporting reliability, and downstream analytics capabilities.
November 2024
7 Commits • 2 Features
Nov 1, 2024November 2024 monthly summary for HealthRex/CDSS: Delivered SQL-based microbiology analytics and vitals processing to enhance antimicrobial stewardship insights and decision support. Implemented Labs Analytics Enhancement (Labs table creation and multi-window stats including quantiles and first/last values across 2/4 weeks with consolidated results), introduced Microbiology Vitals data processing (microbiology_Vitals table and vitals aggregation around culture events), and fixed a naming issue in Vital Signs (temperature alias) to ensure accurate statistics. Commits spanned updates to Labs.sql and targeted vitals improvements across the period.
7 Commits • 2 Features
Nov 1, 2024November 2024 monthly summary for HealthRex/CDSS: Delivered SQL-based microbiology analytics and vitals processing to enhance antimicrobial stewardship insights and decision support. Implemented Labs Analytics Enhancement (Labs table creation and multi-window stats including quantiles and first/last values across 2/4 weeks with consolidated results), introduced Microbiology Vitals data processing (microbiology_Vitals table and vitals aggregation around culture events), and fixed a naming issue in Vital Signs (temperature alias) to ensure accurate statistics. Commits spanned updates to Labs.sql and targeted vitals improvements across the period.
November 2024
October 2024
1 Commits • 1 Features
Oct 1, 2024October 2024 monthly summary for HealthRex/CDSS focusing on data analytics enhancements. Delivered a key feature to enrich time-to-event analytics by adding a comorbidity_component column to the All_Components CTE within comorbidities.sql, enabling richer identifiers for comorbidity components and deeper business insights. The change was implemented in HealthRex/CDSS with a targeted update to comorbidities.sql (commit: 448071798eee52e232b769816adc45605fcd68d2). No major bugs reported this month. Overall impact centers on improved data granularity, faster analytics readiness, and stronger decision support for risk stratification and product analytics. Skills demonstrated include SQL data modeling with CTEs, feature-focused data engineering, and disciplined version control.
October 2024
1 Commits • 1 Features
Oct 1, 2024October 2024 monthly summary for HealthRex/CDSS focusing on data analytics enhancements. Delivered a key feature to enrich time-to-event analytics by adding a comorbidity_component column to the All_Components CTE within comorbidities.sql, enabling richer identifiers for comorbidity components and deeper business insights. The change was implemented in HealthRex/CDSS with a targeted update to comorbidities.sql (commit: 448071798eee52e232b769816adc45605fcd68d2). No major bugs reported this month. Overall impact centers on improved data granularity, faster analytics readiness, and stronger decision support for risk stratification and product analytics. Skills demonstrated include SQL data modeling with CTEs, feature-focused data engineering, and disciplined version control.
Activity
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Quality Metrics
Correctness84.6%
Maintainability85.2%
Architecture82.4%
Performance80.2%
AI Usage25.6%
Skills & Technologies
Programming Languages
JSONJupyter NotebookMarkdownPythonSQL
Technical Skills
AI IntegrationAPI IntegrationAzure Cosmos DBAzure FunctionsBigQueryClinical Data IntegrationCloud FunctionsCode CleanupCosmos DBData AnalysisData CleaningData EngineeringData LoadingData MergingData Modeling
Repositories Contributed To
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