Install strict Xcode Makefile tooling for iOS/macOS projects, including build/run/test scripts with AGENT_NAME-based per-agent isolation under build/.
End-to-end eDNA metabarcoding from raw amplicons to community ecology. Covers QC, primer removal (mandatory before DADA2 filterAndTrim), denoising with OBITools3 v3 (obi stats…
Query ChEMBL bioactive molecules and drug discovery data. Search compounds by structure/properties, retrieve bioactivity data (IC50, Ki), find inhibitors, perform SAR studies, for…
Analyze meeting transcripts to extract decisions, action items, blockers, sentiment, and generate follow-up emails.
Provide actionable treatment recommendations for cancer patients based on molecular profile. Interprets tumor mutations, identifies FDA-approved therapies, finds resistance…
Search GitHub issues, pull requests, and discussions across any repository. Activates when researching external dependencies (whisper.cpp, NAudio), looking for similar bu — from…
Assigns GO terms, Pfam/InterPro domains, KEGG orthologs, EC numbers, and product names to predicted proteins using eggNOG-mapper (orthology), InterProScan (domain signatures), and…
Implement memory-safe programming with RAII, ownership, smart pointers, and resource management across Rust, C++, and C.
When the user wants to build an SEO data analysis system, monitor indexing/traffic/keywords/backlinks, or set up benchmarks.
Comprehensive Excel spreadsheet creation, editing, and analysis with support for formulas, formatting, charts, data analysis, and visualization.
Build reproducible bioinformatics pipelines with Snakemake using rules, wildcards, and automatic dependency resolution.
Write, optimize, and debug T-SQL queries for Microsoft SQL Server. Covers CTEs, window functions, PIVOT, MERGE, APPLY operators, execution plan analysis, indexing strategies, and…
Performs ML-based protein-ligand pose prediction and scoring using DiffDock-L (diffusion-based), Boltz-1 / Boltz-2 (foundation model with affinity), Chai-1, AlphaFold3 ligand,…
Load and preprocess imaging mass cytometry (IMC) and MIBI data. Covers MCD/TIFF handling, hot pixel removal, and image normalization.
Create AI avatar and talking head videos via inference.sh CLI. Recommended: P-Video-Avatar (fastest, cheapest, built-in TTS). Also: OmniHuman, Fabric, PixVerse.
End-to-end ATAC-seq workflow from FASTQ files to differential accessibility and TF footprinting. Covers alignment, peak calling with MACS3, QC metrics, and optional TOBIA — from…
Detect common security vulnerabilities in code. Covers OWASP patterns, SQL injection, bare excepts, shell injection. Framework-agnostic.
All-in-one read preprocessing with fastp including adapter trimming, quality filtering, deduplication, base correction, and HTML report generation.
Annotate CLIP-seq peaks or crosslink sites to RNA features (5'UTR, CDS, 3'UTR, intron, splice junction, snoRNA, tRNA, ncRNA, repeat elements) with ChIPseeker, RCAS, RBP-Maps (Yeo…
將提示詞和程式碼從 Claude Sonnet 4.0、Sonnet 4.5 或 Opus 4.1 遷移至 Opus 4.5。當使用者想要更新其程式碼庫、提示詞或 API 呼叫以使用 Opus 4.5 時使用。處理模型字串更新和針對已知 Opus 4.5 行為差異的提示詞調整。不會遷移 Haiku 4.5。
Alpha and beta diversity analysis for microbiome data. Calculate within-sample richness, evenness, and between-sample dissimilarity with phyloseq and vegan.
Estimates circulating tumor DNA fraction from shallow whole-genome sequencing using ichorCNA. Detects copy number alterations via HMM segmentation and calculates ctDNA pe — from…
DNA methylation analysis with methylKit in R. Import Bismark coverage files, filter by coverage, normalize samples, and perform statistical comparisons.
Turborepo monorepo build system guidance. Triggers on: turbo.json, task pipelines, dependsOn, caching, remote cache, the "turbo" CLI, --filter, --affected, CI optimizatio — from…
Framework for computational fluid dynamics simulations using Python. Use when running fluid dynamics simulations including Navier-Stokes equations (2D/3D), shallow water — from…
QIIME2 command-line workflow for 16S/ITS amplicon analysis. Alternative to DADA2/phyloseq R workflow with built-in provenance tracking.
Project gene annotations across genomes using TOGA (Kirilenko 2023 whole-genome-alignment chain-based projection with intactness classification), CESAR 2.0 (Sharma & Hiller 2017…
Write effective blameless postmortems with root cause analysis, timelines, and action items. Use when conducting incident reviews, writing postmortem documents, or improving…
Web search and content extraction with Tavily and Exa via inference.sh CLI. Apps: Tavily Search, Tavily Extract, Exa Search, Exa Answer, Exa Extract.
Generate images with Google Gemini native image models via inference.sh CLI. Models: Gemini 3 Pro Image, Gemini 2.5 Flash Image.
Select and optimize embedding models for semantic search and RAG applications. Use when choosing embedding models, implementing chunking strategies, or optimizing embeddi — from…
When the user wants to optimize heading structure (H1-H6), fix heading hierarchy, or improve content structure.
Create 3D data visualizations using Swift Charts. Use when the user wants to create a 3D chart, asks about Chart3D or SurfacePlot, needs interactive drag-to-rotate, or wants…
Queries PharmGKB / CPIC / DPWG for drug-gene interactions; calls CYP2D6/CYP2C9/CYP2C19/DPYD/TPMT/NUDT15/UGT1A1/SLCO1B1 star alleles and phenotype with PharmCAT, Cyrius (CYP2D6…
End-to-end Ribo-seq analysis from FASTQ to translation efficiency and ORF detection. Use when analyzing ribosome profiling data to study translation. — from bg-szy/TOP-SKILLS
Comprehensive patient stratification for precision medicine by integrating genomic, clinical, and therapeutic data.
Map scRNA-seq atlases onto spatial transcriptomics slides using omicverse's Single2Spatial workflow for deep-forest training, spot-level assessment, and marker visualisat — from…
Generates production-ready FastGPT workflow JSON from natural language requirements. Uses AI-powered semantic template matching from built-in workflows (document translation,…
Build publication-quality figures with matplotlib using the object-oriented Figure/Axes API, constrained_layout, rcParams customization, TrueType (Type-42) font embedding for…
Cell type assignment from marker expression in IMC data. Covers manual gating, clustering, and automated classification approaches.
Query ClinicalTrials.gov via API v2. Search trials by condition, drug, location, status, or phase. Retrieve trial details by NCT ID, export data, for clinical research an — from…
Analyzes cfDNA methylation patterns for cancer detection using cfMeDIP-seq or bisulfite sequencing with MethylDackel.
Metabolite identification from m/z and retention time. Covers database matching, MS/MS spectral matching, and confidence level assignment.
Region edits across video frames on RunComfy via the `runcomfy` CLI — remove an object that appears across many frames, clean up wires or watermarks, replace a region with…
Designs and analyzes in vivo CRISPR screens in animal tumor models, organoids, and immune-cell adoptive transfers.
Analyzes chemical libraries by scaffold using Bemis-Murcko scaffolds, generic frameworks, cyclic skeletons, matched molecular pair (MMP) analysis via mmpdb, R-group decomposition,…
Generate AI images with FLUX, Gemini, Grok, Seedream, Reve and 50+ models via inference.sh CLI. Models: FLUX Dev LoRA, FLUX.2 Klein LoRA, Gemini 3 Pro Image, Grok Imagine — from…
Preprocessing and harmonization of multi-omics data before integration. Covers normalization, batch correction, feature alignment, and missing value handling across data — from…
Local protein structure prediction with AlphaFold, Boltz, or Chai. Compare predicted structures, compute RMSD, visualise 3D models.
Comprehensive truth scoring, code quality verification, and automatic rollback system with 0.95 accuracy threshold for ensuring high-quality agent outputs and codebase re — from…
Manage breaking API changes, migration guides, deprecation notices, and semver versioning. Use when introducing breaking changes, writing migration paths, updating changelogs, or…
Generate and edit images with Alibaba Qwen-Image-2.0 models via inference.sh CLI. Models: Qwen-Image-2.0 (fast), Qwen-Image-2.0-Pro (professional text rendering).
Protein quantification from mass spectrometry data including label-free (LFQ, intensity-based), isobaric labeling (TMT, iTRAQ), and metabolic labeling (SILAC) approaches — from…
Load spatial transcriptomics data from Visium, Xenium, MERFISH, Slide-seq, and other platforms using Squidpy and SpatialData.
Direct REST API access to PubMed. Advanced Boolean/MeSH queries, E-utilities API, batch processing, citation management.
Comprehensive backend development skill for building scalable backend systems using NodeJS, Express, Go, Python, Postgres, GraphQL, REST APIs.
Web search and content extraction with Tavily and Exa via inference.sh CLI. Apps: Tavily Search, Tavily Extract, Exa Search, Exa Answer, Exa Extract.
Generate and interpret quality reports from FASTQ files using FastQC and MultiQC. Assess per-base quality, adapter content, GC bias, duplication levels, and overrepresent — from…
Install Codex skills into $CODEX_HOME/skills from a curated list or a GitHub repo path. Use when a user asks to list installable skills, install a curated skill, or insta — from…
When the user wants to design, optimize, or audit call-to-action (CTA) buttons. Also use when the user mentions "CTA," "call to action," "button design," "conversion button,"…