Welcome to genereporter’s documentation!

genereporter is a Python library Sami developed as part (or most) or her Bachelor’s thesis. genereporter focuses on generating an in-depth, gene-level view of a specific gene of interest. Using mostly scRNA-seq data (for now), genereporter provides analysis methods that can facilitate wet-lab researchers accessability of typically computational tasks. genereporter has three different methods of analysis: cell type specific, gene set enrichment analysis, and sample (patient) specific. Through both the python library and the automized Jupyter Notebook pipelines, genereporter is built to be user-friendly and easy to use for both bioinformaticians and wet-lab researchers. Check out the Usage section for further information.

Note

This is a work in progress. The documentation and the library may still contain bugs and errors.

• Usage
• Cell Type Specific Analysis
• Gene Regulatory Network Analysis
• Sample (Patient) Level Analysis
• Using CellPipeline
• Using GRNPipeline
• Using SamplePipeline