Data & ReproBioinformatics & GenomicsFreedomIntelligence/OpenClaw-Medical-SkillsData & Reproduction

bio-reporting-jupyter-reports

Maintainer FreedomIntelligence · Last updated April 1, 2026

Create Jupyter notebook reports with reproducible analysis code.

OpenClawNanoClawAnalysisReproductionbio-reporting-jupyter-reports🧠 bioos extended suitebioos extended bioinformatics suitecreate

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-reporting-jupyter-reports

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

pm.execute_notebook( 'analysis_template.ipynb', 'output_report.ipynb', parameters={ 'input_file': 'data/counts.csv', 'condition_col': 'treatment', 'fdr_threshold': 0.05 } ).
input_file = 'default.csv' output_dir = 'results/' fdr_threshold = 0.05.

Source Doc

Excerpt From SKILL.md

Parameterized Notebooks

import papermill as pm

## Creating Parameterized Templates

Mark a cell with the `parameters` tag in Jupyter:

```python

## Single notebook

jupyter nbconvert --to html report.ipynb

Use cases

Use bio-reporting-jupyter-reports for genomics and bioinformatics workflows.
Apply bio-reporting-jupyter-reports to sequencing, variant, or omics analysis tasks.