longTREC/summer_school
Jun 2025 – Jul 2025
2 Months active
Languages Used
PythonShellJupyter NotebookMarkdown
Technical Skills
BioinformaticsData AnalysisGenomicsJupyter NotebooksRNA-Seq AnalysisData Visualization
nadjano
PROFILE
Nadjano
Developed and enhanced a reproducible potato allele-specific expression analysis workflow within the longTREC/summer_school repository, focusing on structured RNA-Seq data analysis and visualization using Jupyter Notebooks and Python. The work included building a notebook to load and examine transcript metadata, analyze synteny categories, and extract allele-specific counts from mapped reads, emphasizing coding sequence regions to avoid bias. Subsequent improvements addressed usability and reproducibility, adding detailed documentation, setup guidance, and quality control visualizations. These updates streamlined onboarding for new analysts and improved the clarity and maintainability of the workflow, supporting efficient and transparent potato genomics research in a collaborative environment.
Overall Statistics
Feature vs Bugs
100%Features
Repository Contributions
6Total
Bugs
0
Commits
6
Features
2
Lines of code
6,132
Activity Months2
Your Network
33 peopleWork History
July 2025
5 Commits • 1 Features
Jul 1, 2025In July 2025, delivered substantial usability, documentation, and reproducibility improvements for the Allele-Specific Expression Analysis Notebook in the longTREC/summer_school project. The changes enhance analysis readiness for potato ASE data and reduce onboarding time for new users by clarifying setup, column definitions, and QC visualization.
5 Commits • 1 Features
Jul 1, 2025In July 2025, delivered substantial usability, documentation, and reproducibility improvements for the Allele-Specific Expression Analysis Notebook in the longTREC/summer_school project. The changes enhance analysis readiness for potato ASE data and reduce onboarding time for new users by clarifying setup, column definitions, and QC visualization.
July 2025
June 2025
1 Commits • 1 Features
Jun 1, 2025June 2025 monthly summary for longTREC/summer_school: Implemented a reproducible potato allele-specific expression analysis workflow via a Jupyter notebook, enabling structured analysis of transcript metadata and CDS-focused allele counts. This work enhances data-driven insights in potato genomics and improves research efficiency and onboarding for new analysts.
June 2025
1 Commits • 1 Features
Jun 1, 2025June 2025 monthly summary for longTREC/summer_school: Implemented a reproducible potato allele-specific expression analysis workflow via a Jupyter notebook, enabling structured analysis of transcript metadata and CDS-focused allele counts. This work enhances data-driven insights in potato genomics and improves research efficiency and onboarding for new analysts.
Activity
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Quality Metrics
Correctness86.6%
Maintainability86.6%
Architecture86.6%
Performance80.0%
AI Usage20.0%
Skills & Technologies
Programming Languages
Jupyter NotebookMarkdownPythonShell
Technical Skills
BioinformaticsData AnalysisData VisualizationEnvironment SetupGenomicsJupyter NotebookJupyter NotebooksPackage ManagementPythonRNA-Seq Analysis
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