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Python · By aipoch
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| # | Skill | Repository | Stars | Used in | Tokens | Auto-check | Licence | Updated |
|---|---|---|---|---|---|---|---|---|
| 1 | Generate R/Python code for volcano plots from DEG (Differentially Expressed Genes) analysis results. | aipoch/ | 2k | — | ~2.5k | Automated safety check: Pass | MIT | 22 days ago |
| 2 | Search, retrieve metadata, and download PDFs for bioRxiv preprints; use when you need to discover biology preprints by keywords/authors/date ranges and programmatically fetch their details. | aipoch/ | 2k | — | ~1.4k | Automated safety check: Pass | MIT | 22 days ago |
| 3 | Unified Python access to 40+ bioinformatics web services; use when you need to query multiple databases (e.g., UniProt/KEGG/ChEMBL/Reactome) with one consistent API in a single workflow, especially… | aipoch/ | 2k | — | ~1.7k | Automated safety check: Pass | MIT | 22 days ago |
| 4 | Programmatic access to the BRENDA enzyme database via the SOAP API; use when you need kinetic constants (Km, kcat, Vmax), reaction equations, enzyme properties (pH/temperature optima, stability), or… | aipoch/ | 2k | — | ~1.6k | Automated safety check: Notes | MIT | 22 days ago |
| 5 | Batch-unify typography (font family, size, italics) for Word table cells and embedded charts; use when you need consistent formatting across theses/reports without changing body text. | aipoch/ | 2k | — | ~3k | Automated safety check: Pass | MIT | 22 days ago |
| 6 | Utilities for querying the NCBI ClinVar database to retrieve variant records, clinical significance, and phenotype relationships; use when searching variants by gene/condition/significance… | aipoch/ | 2k | — | ~856 | Automated safety check: Pass | MIT | 22 days ago |
| 7 | 7.Gget Unified CLI/Python interface for querying genomic, proteomic, structure, and expression data across 20+ bioinformatics databases; use when you need fast, scriptable retrieval by gene/protein IDs or… | aipoch/ | 2k | — | ~816 | Automated safety check: Pass | MIT | 22 days ago |
| 8 | Generate renderable, scientific-style SVG graphics directly from natural-language requirements (no image models). | aipoch/ | 2k | — | ~1.1k | Automated safety check: Pass | MIT | 22 days ago |
| 9 | Direct access to KEGG via the REST API for academic-only pathway/gene/compound/drug queries; use when you need precise HTTP-level control or targeted KEGG ID mapping. | aipoch/ | 2k | — | ~1.3k | Automated safety check: Pass | MIT | 22 days ago |
| 10 | Generates a Meta-analysis results section description for funnel plots, including statistical tables (Egger's, Begg's, Trim & Fill) and figure legends. | aipoch/ | 2k | — | ~1.4k | Automated safety check: Pass | MIT | 22 days ago |
| 11 | 11.Pydeseq Differential gene expression analysis for bulk RNA-seq count matrices using a DESeq2-like workflow in Python; use when you need Wald tests, FDR correction, and optional LFC shrinkage for… | aipoch/ | 2k | — | ~1.8k | Automated safety check: Pass | MIT | 22 days ago |
| 12 | Comprehensive tool for computational mass spectrometry using PyOpenMS; use when you need to read/write MS formats (mzML/mzXML/MGF), run signal processing (smoothing/peak picking), detect isotope… | aipoch/ | 2k | — | ~852 | Automated safety check: Pass | MIT | 22 days ago |
| 13 | Automatically finds and ranks PubMed references for each sentence in scientific text; use when you need titles, DOIs, and brief recommendation reasons from the PubMed E-utilities API. | aipoch/ | 2k | — | ~1.1k | Automated safety check: Pass | MIT | 22 days ago |
| 14 | Spreadsheet processing and analysis for CSV/Excel; trigger when users ask to merge/clean tabular data, run statistics, add/edit Excel formulas, apply formatting, generate charts, or force workbook… | aipoch/ | 2k | — | ~1.7k | Automated safety check: Pass | MIT | 22 days ago |
| 15 | 15.Markitdown Convert files and Office documents into clean Markdown when you need LLM-friendly, token-efficient text (e.g., for summarization, search, RAG ingestion, or dataset preparation). | aipoch/ | 2k | — | ~1.3k | Automated safety check: Pass | MIT | 22 days ago |
| 16 | Check for interactions between multiple medications, including severity classification and mechanism explanations. | aipoch/ | 2k | — | ~2.5k | Automated safety check: Pass | MIT | 22 days ago |
| 17 | Search FDA industry guidelines by therapeutic area or topic. | aipoch/ | 2k | — | ~2.3k | Automated safety check: Pass | MIT | 22 days ago |
| 18 | 18.Geopandas A Python library for reading, writing, and analyzing geospatial vector data; use it when you need spatial operations (buffer/overlay/join), CRS reprojection, or map visualization on formats like… | aipoch/ | 2k | — | ~2k | Automated safety check: Pass | MIT | 22 days ago |
| 19 | 19.Gtars A high-performance Rust toolkit (with Python bindings and a CLI) for genomic interval analysis; use it when you need fast overlap queries, coverage track generation, genomic tokenization for ML… | aipoch/ | 2k | — | ~1.1k | Automated safety check: Pass | MIT | 22 days ago |
| 20 | Clinical-grade PII/PHI detection and de-identification for healthcare text data. | aipoch/ | 2k | — | ~2.9k | Automated safety check: Pass | MIT | 22 days ago |
| 21 | Calculate literature growth velocity and acceleration to assess research. | aipoch/ | 2k | — | ~2.6k | Automated safety check: Pass | MIT | 22 days ago |
| 22 | Use medication adherence message gen for academic writing workflows that need structured execution, explicit assumptions, and clear output boundaries. | aipoch/ | 2k | — | ~2.6k | Automated safety check: Pass | MIT | 22 days ago |
| 23 | 23.Mindmap Generate mindmaps locally/offline with native HTML/CSS/JS (no external libraries); use when you need to parse Plain Text node structures or map LLM outputs into an on-device visualization. | aipoch/ | 2k | — | ~1.7k | Automated safety check: Pass | MIT | 22 days ago |
| 24 | Predict neoantigens that may be recognized by the immune system based. | aipoch/ | 2k | — | ~3.8k | Automated safety check: Pass | MIT | 22 days ago |
| 25 | 25.Plotly Interactive visualization library for Python. An agent skill from aipoch/medical-research-skills. | aipoch/ | 2k | — | ~2.7k | Automated safety check: Pass | MIT | 22 days ago |
| 26 | Generate professional poster design concepts and optimized image-generation prompts, then automatically run a drawing script to produce the final poster image when a user needs a poster. | aipoch/ | 2k | — | ~1.3k | Automated safety check: Pass | MIT | 22 days ago |
| 27 | Programmatic access to the PubChem database (via PUG-REST API and PubChemPy) for searching chemical compounds, retrieving physicochemical properties, performing structure similarity/substructure… | aipoch/ | 2k | — | ~954 | Automated safety check: Pass | MIT | 22 days ago |
| 28 | One-click synchronization and standardization of reference formats in literature management tools, intelligently fixing metadata errors. | aipoch/ | 2k | — | ~2.8k | Automated safety check: Pass | MIT | 22 days ago |
| 29 | 29.Scikit Bio A Python bioinformatics toolkit for sequence, phylogeny, and microbiome/community-ecology analysis; use it when you need to compute diversity/ordination/statistics from biological data and standard… | aipoch/ | 2k | — | ~1.4k | Automated safety check: Pass | MIT | 22 days ago |
| 30 | A comprehensive toolkit for survival analysis and time-to-event modeling in Python using scikit-survival; use it when you need to model censored time-to-event outcomes, fit Cox/RSF/GB models or… | aipoch/ | 2k | — | ~1.6k | Automated safety check: Pass | MIT | 22 days ago |
| 31 | Use semantic consistency auditor for academic writing workflows that need structured execution, explicit assumptions, and clear output boundaries. | aipoch/ | 2k | — | ~3.1k | Automated safety check: Pass | MIT | 22 days ago |
| 32 | Analyze data with survival-curve-risk-table using a reproducible workflow, explicit validation, and structured outputs for review-ready interpretation. | aipoch/ | 2k | — | ~4.2k | Automated safety check: Pass | MIT | 22 days ago |
| 33 | Analyze data with toxicity-structure-alert using a reproducible workflow, explicit validation, and structured outputs for review-ready interpretation. | aipoch/ | 2k | — | ~2.6k | Automated safety check: Pass | MIT | 22 days ago |
| 34 | Query and annotate gene variants from ClinVar and dbSNP databases. | aipoch/ | 2k | — | ~3.5k | Automated safety check: Pass | MIT | 22 days ago |
| 35 | Adjust academic paper formatting and convert between DOCX/LaTeX/Markdown when you need to meet a journal or school template requirement. | aipoch/ | 2k | — | ~2.4k | Automated safety check: Pass | MIT | 22 days ago |
| 36 | EndNote reference formatting workflow — converts [PMID: xxxx] markers in Markdown manuscripts to Word (.docx) using EndNote CWYW-recognized {Author, Year, Title} placeholders, while generating .ris… | aipoch/ | 2k | — | ~1.5k | Automated safety check: Pass | MIT | 22 days ago |
| 37 | Predict depletion time of critical lab reagents based on historical usage frequency, and automatically generate purchase alerts when stock falls below safety thresholds. | aipoch/ | 2k | — | ~2.2k | Automated safety check: Pass | MIT | 22 days ago |
| 38 | Generate meta-analysis forest plots for binary classification data. | aipoch/ | 2k | — | ~2.1k | Automated safety check: Pass | MIT | 22 days ago |
| 39 | Generate forest plots for meta-analysis of survival data. An agent skill from aipoch/medical-research-skills. | aipoch/ | 2k | — | ~2k | Automated safety check: Pass | MIT | 22 days ago |
| 40 | Generate publication-quality sequence logos for DNA or protein motifs. | aipoch/ | 2k | — | ~2.2k | Automated safety check: Pass | MIT | 22 days ago |
| 41 | 41.Pydicom A Python library for working with DICOM (Digital Imaging and Communications in Medicine) files. | aipoch/ | 2k | — | ~4.4k | Automated safety check: Pass | MIT | 22 days ago |
| 42 | DNAnexus cloud genomics platform. An agent skill from aipoch/medical-research-skills. | aipoch/ | 2k | — | ~3.5k | Automated safety check: Pass | MIT | 22 days ago |
