Skills matching the name, description or GitHub author.
Find cross-references between NCBI databases using Biopython Bio.Entrez. Use for navigating from genes to proteins, sequences to publications, finding related records, and discovering database relationships.
Retrieve records from NCBI databases using Biopython Bio.Entrez. Use for downloading sequences, fetching GenBank records, getting document summaries, and parsing NCBI data into Biopython objects.
Search NCBI databases using Biopython Bio.Entrez. Use for finding records by keyword, building search queries, discovering database structure, and getting global query counts across databases.
Query NCBI Gene Expression Omnibus (GEO) for expression datasets using Biopython Bio.Entrez. Use for finding microarray/RNA-seq datasets, downloading expression data, and linking GEO to SRA.
Compute evolutionary distances and build phylogenetic trees using Biopython Bio.Phylo.TreeConstruction. Use for creating distance matrices from alignments, building NJ/UPGMA trees, parsimony analysis, and gener...
Analyze codon usage, calculate CAI (Codon Adaptation Index), and examine synonymous codon bias using Biopython. Use when analyzing coding sequences for expression optimization or evolutionary analysis.
Work with FASTQ quality scores using Biopython. Use when analyzing read quality, filtering by quality, trimming low-quality bases, or generating quality reports.
Perform pairwise sequence alignment using Biopython Bio.Align.PairwiseAligner. Use for comparing two sequences, finding optimal alignments, scoring similarity, and identifying local or global matches between DN...
Calculate sequence statistics (N50, length distribution, GC content, summary reports) using Biopython. Use when analyzing sequence datasets, generating QC reports, or comparing assemblies.
Analyze restriction digest fragments using Biopython Bio.Restriction. Predict fragment sizes, get fragment sequences, simulate gel electrophoresis patterns, and perform double digests.
Navigate protein structure hierarchy using Biopython Bio.PDB SMCRA model. Use for accessing models, chains, residues, and atoms, iterating over structure levels, extracting sequences, identifying residue types,...
Review Python code for quality, security, and best practices
Generate pytest test cases for Python functions and classes
Comprehensive data analysis skill for CSV files using Python and pandas
When given a Python project codebase, this skill helps the agent to set up virtual environments, install dependencies, and run scripts.
Test Temporal workflows with pytest, time-skipping, and mocking strategies. Covers unit testing, integration testing, replay testing, and local development setup. Use when implementing Temporal workflow tests o...
Master the uv package manager for fast Python dependency management, virtual environments, and modern Python project workflows. Use when setting up Python projects, managing dependencies, or optimizing Python d...
Automatically applies when configuring Python project packaging. Ensures proper pyproject.toml setup, project layout, build configuration, metadata, and distribution best practices.
Extract text content from images using Tesseract OCR via Python
Fast Python environment management with uv (10-100x faster than pip). Triggers on: uv, venv, pip, pyproject, python environment, install package, dependencies.
Creating fuzz driver for Python libraries using LibFuzzer. This skill is useful when agent needs to work with creating fuzz drivers / fuzz targets for Python project and libraries.
Python JSON parsing best practices covering performance optimization (orjson/msgspec), handling large files (streaming/JSONL), security (injection prevention), and advanced querying (JSONPath/JMESPath). Use whe...
Transit Least Squares (TLS) algorithm for detecting exoplanet transits in light curves. Use when searching for transiting exoplanets specifically, as TLS is more sensitive than Lomb-Scargle for transit-shaped s...
Guidance for creating Python packages and serving them via a local PyPI server. This skill applies when tasks involve building Python packages (with pyproject.toml or setup.py), setting up local package reposit...
The default order uses GitHub repository stars from our indexed data. Stars belong to the source repository and may be shared by multiple skills. They indicate repository interest, not skill installs or an independent quality score.