strmt7/ai_skills_collection_benchmarked - Page 12

docker-patterns

Docker and Docker Compose patterns for local development, container security, networking, volume strategies, and multi-service orchestration.

Langue du texte source : anglais

docs-knowledge-maintainer

Keep repository documentation accurate when behavior, topology, env contracts, or troubleshooting procedures change.

Langue du texte source : anglais

documentation-lookup

Use current official documentation and release notes for OMERO, Django, Docker, Python, PostgreSQL, monitoring tools, and AI harnesses instead of memory.

Langue du texte source : anglais

documentation-lookup

Use up-to-date library and framework docs via Context7 MCP instead of training data. Activates for setup questions, API references, code examples, or when the user names a framework (e.g. React, Next.js, Prisma).

Langue du texte source : anglais

env-contract-reviewer

Review environment-driven configuration changes so they stay template-backed, typed, documented, and free of hard-coded runtime values.

Langue du texte source : anglais

frontend-preview

Preview HTML/CSS/JS changes in Django plugin templates with the pinned host-side Vite/Vitest toolchain, then validate live in OMERO.web.

Langue du texte source : anglais

omero-runtime-verifier

Safe runtime-debugging workflow for OMERO Docker Extended, including Loki-first log triage, container venv discovery, and correct OMERO service-user usage.

Langue du texte source : anglais

plugin-regression-triager

Map changed files to the correct split pytest suites and fast regression checks for this repository.

Langue du texte source : anglais

postgres-patterns

PostgreSQL guidance for the main OMERO database, plugin database, migrations, indexes, and maintenance contracts.

Langue du texte source : anglais

postgres-patterns

PostgreSQL database patterns for query optimization, schema design, indexing, and security. Based on Supabase best practices.

Langue du texte source : anglais

python-patterns

Python patterns for this repo's helpers, plugins, services, startup tooling, and environment-driven contracts.

Langue du texte source : anglais

python-patterns

Pythonic idioms, PEP 8 standards, type hints, and best practices for building robust, efficient, and maintainable Python applications.

Langue du texte source : anglais

python-testing

Python testing guidance for split pytest lanes, contract tests, shell checks, and syntax-only fallbacks in this repo.

Langue du texte source : anglais

python-testing

Python testing strategies using pytest, TDD methodology, fixtures, mocking, parametrization, and coverage requirements.

Langue du texte source : anglais

search-first

Research-before-coding workflow for OMERO Docker Extended. Check the repo, tests, official upstream docs, and release notes before writing new code.

Langue du texte source : anglais

search-first

Research-before-coding workflow. Search for existing tools, libraries, and patterns before writing custom code. Invokes the researcher agent.

Langue du texte source : anglais

security-finding-triager

Triage code-scanning findings using the repo's live runbook, closed-history ledger, and canonical prevention playbook before editing security-sensitive code.

Langue du texte source : anglais

security-review

Security review for uploads, filesystem paths, SQL, responses, subprocesses, Docker, workflows, and secrets in this repo.

Langue du texte source : anglais

security-review

Use this skill when adding authentication, handling user input, working with secrets, creating API endpoints, or implementing payment/sensitive features. Provides comprehensive security checklist and patterns.

Langue du texte source : anglais

site-extract

Extract the smallest useful amount of text or structured data from a known public page before falling back to full browser automation.

Langue du texte source : anglais

source-audit

Verify public-web findings with source quality, dates, and second-source checks before turning them into advice or claims.

Langue du texte source : anglais

tdd-workflow

TDD guidance for repo changes using narrow regression tests, split pytest lanes, and docs updates as part of done-ness.

Langue du texte source : anglais

tdd-workflow

Use this skill when writing new features, fixing bugs, or refactoring code. Enforces test-driven development with 80%+ coverage including unit, integration, and E2E tests.

Langue du texte source : anglais

verification-loop

Repository-specific verification flow for OMERO Docker Extended. Runs docs validation, Ruff, split pytest suites, and targeted fallback checks without overstating coverage.

Langue du texte source : anglais

verification-loop

A comprehensive verification system for Claude Code sessions.

Langue du texte source : anglais

web-discovery

Plan and run current public-web discovery for docs, releases, issues, and community evidence without guessing or over-browsing.

Langue du texte source : anglais

adaptyv

How to use the Adaptyv Bio Foundry API and Python SDK for protein experiment design, submission, and results retrieval. Use this skill whenever the user mentions Adaptyv, Foundry API, protein binding assays, protein screening experiments, BLI/SPR assays,…

Langue du texte source : anglais

aeon

This skill should be used for time series machine learning tasks including classification, regression, clustering, forecasting, anomaly detection, segmentation, and similarity search. Use when working with temporal data, sequential patterns, or time-indexed…

Langue du texte source : anglais

anndata

Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for…

Langue du texte source : anglais

arboreto

Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and…

Langue du texte source : anglais

astropy

Comprehensive Python library for astronomy and astrophysics. This skill should be used when working with astronomical data including celestial coordinates, physical units, FITS files, cosmological calculations, time systems, tables, world coordinate systems…

Langue du texte source : anglais

benchling-integration

Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.

Langue du texte source : anglais

bgpt-paper-search

Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server. Returns 25+ fields per paper including methods, results, sample sizes, quality scores, and conclusions. Use for literature reviews,…

Langue du texte source : anglais

biopython

Comprehensive molecular biology toolkit. Use for sequence manipulation, file parsing (FASTA/GenBank/PDB), phylogenetics, and programmatic NCBI/PubMed access (Bio.Entrez). Best for batch processing, custom bioinformatics pipelines, BLAST automation. For quick…

Langue du texte source : anglais

bioservices

Unified Python interface to 40+ bioinformatics services. Use when querying multiple databases (UniProt, KEGG, ChEMBL, Reactome) in a single workflow with consistent API. Best for cross-database analysis, ID mapping across services. For quick single-database…

Langue du texte source : anglais

cellxgene-census

Query the CELLxGENE Census (61M+ cells) programmatically. Use when you need expression data across tissues, diseases, or cell types from the largest curated single-cell atlas. Best for population-scale queries, reference atlas comparisons. For analyzing your…

Langue du texte source : anglais

cirq

Google quantum computing framework. Use when targeting Google Quantum AI hardware, designing noise-aware circuits, or running quantum characterization experiments. Best for Google hardware, noise modeling, and low-level circuit design. For IBM hardware use…

Langue du texte source : anglais

citation-management

Comprehensive citation management for academic research. Search Google Scholar and PubMed for papers, extract accurate metadata, validate citations, and generate properly formatted BibTeX entries. This skill should be used when you need to find papers, verify…

Langue du texte source : anglais

clinical-decision-support

Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified with outcomes) and treatment recommendation reports (evidence-based guidelines with…

Langue du texte source : anglais

clinical-reports

Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates,…

Langue du texte source : anglais