Preprocesses cell-free DNA sequencing data including adapter trimming, alignment optimized for short fragments, and UMI-aware duplicate removal using fgbio.
Azure Monitor OpenTelemetry Exporter for Java. Export OpenTelemetry traces, metrics, and logs to Azure Monitor/Application Insights. Note: This package is DEPRECATED.
Guide for creating high-quality MCP (Model Context Protocol) servers that enable LLMs to interact with external services through well-designed tools.
Protein grouping and inference from peptide identifications. Use when resolving protein ambiguity from shared peptides.
Checklist-style reference for OmicVerse downstream tutorials covering AUCell scoring, metacell DEG, and related exports.
Systematic writing framework for philosophy and interdisciplinary academic papers from optimized outline to submission-ready manuscript.
End-to-end small RNA-seq analysis from FASTQ to differential miRNA expression. Use when analyzing miRNA, piRNA, or other small RNA sequencing data. — from bg-szy/TOP-SKILLS
Walk Claude through PyDESeq2-based differential expression, including ID mapping, DE testing, fold-change thresholding, and enrichment visualisation. — from bg-szy/TOP-SKILLS
Implement saga patterns for distributed transactions and cross-aggregate workflows. Use when coordinating multi-step business processes, handling compensating transactions, or…
Read and manipulate Flow Cytometry Standard (FCS) files. Covers loading data, accessing parameters, and basic data exploration.
Migrate MS Teams chat content to channels or between chats. USE WHEN teams migration, migrate chat, copy messages, teams channel, move chat history, teams backup, chat to channel.
Comprehensive testing workflow combining TDD, real implementations (no mocking), and E2E testing. Use when implementing features, writing tests, or setting up test infrastructure.
Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), an — from…
Targeted metabolomics analysis using MRM/SRM with standard curves. Covers absolute quantification, method validation, and quality assessment.
Master Go concurrency with goroutines, channels, sync primitives, and context. Use when building concurrent Go applications, implementing worker pools, or debugging race — from…
End-to-end TCR/BCR repertoire analysis from FASTQ to clonotype diversity metrics. Use when analyzing immune repertoire sequencing data from bulk or single-cell experiment — from…
AI-powered code review using CodeRabbit. Default code-review skill. Trigger for any explicit review request AND autonomously when the agent thinks a review is needed…
Clusters genes by temporal expression profile shape using Mfuzz soft clustering, TCseq, and DEGreport degPatterns.
Official Opentrons Protocol API for OT-2 and Flex robots. Use when writing protocols specifically for Opentrons hardware with full access to Protocol API v2 features.
Verification discipline for completion claims. Use when about to assert success, claim a fix is complete, report tests passing, or before commits and PRs.
Analyzes your recent Claude Code chat history to identify coding patterns, development gaps, and areas for improvement, curates relevant learning resources from HackerNew — from…
Applies ACMG/AMP 2015 framework with ClinGen SVI specifications, Tavtigian 2018/2020 Bayesian point system, Abou Tayoun 2018 PVS1 decision tree, Pejaver 2022 calibrated PP3/BP4…
基于本地 git diff 的代码审查技能。用于在提交 PR 前先做自检评审，严格复用 pr-review 的三维度标准（代码质量标准、FastGPT 风格规范、常见问题清单），支持审查未暂存改动、已暂存改动、某次提交、或当前分支相对基线分支的全部改动。
End-to-end drug discovery platform combining ChEMBL compounds, DrugBank, targets, and FDA labels. Natural language powered by Valyu.
Create professional research posters in LaTeX using beamerposter, tikzposter, or baposter. Support for conference presentations, academic posters, and scientific communic — from…
Calls DNA methylation from Oxford Nanopore sequencing data using signal-level analysis. Use when detecting 5mC or 6mA modifications directly from nanopore reads without b — from…
Reads, validates, and prepares CDISC SDTM and ADaM clinical trial data for analysis. Covers SDTM domain joins (DM, AE, EX, VS, LB, DS), ADaM architecture (ADSL, BDS, OCCDS, ADTTE)…
Create structured incident response runbooks with step-by-step procedures, escalation paths, and recovery actions.
When the user wants to create, optimize, or audit About page content. Also use when the user mentions "about page," "about us," "company story," "our team," "about section,"…
Normalizes ChIP-seq data using exogenous spike-in (ChIP-Rx with Drosophila chromatin per Orlando 2014 / Egan 2016; E. coli carryover for CUT&RUN/CUT&Tag).
Work with FASTQ quality scores using Biopython. Use when analyzing read quality, filtering by quality, trimming low-quality bases, or generating quality reports.
Structures biological experiments so inference is valid by construction, covering Fisher's principles (randomization, replication, local control), the…
Find marker genes and annotate cell types in single-cell RNA-seq using Seurat (R) and Scanpy (Python).
Write biological sequences to files (FASTA, FASTQ, GenBank, EMBL) using Biopython Bio.SeqIO. Use when saving sequences, creating new sequence files, or outputting modifie — from…
Delimits putative species boundaries from molecular data within the de Queiroz 2007 unified-lineage framework using ASAP (Puillandre 2021 successor to ABGD), mPTP C++ (Kapli 2017…
When the user wants to create or optimize a shipping or delivery information page. Also use when the user mentions "shipping," "delivery," "shipping policy," "delivery times,"…
Apply STRIDE methodology to systematically identify threats. Use when analyzing system security, conducting threat modeling sessions, or creating security documentation.
Master on-call shift handoffs with context transfer, escalation procedures, and documentation. Use when transitioning on-call responsibilities, documenting shift summaries, or…
Use when receiving code review feedback, before implementing suggestions, especially if feedback seems unclear or technically questionable - requires technical rigor and — from…
Create and use BAI/CSI indices for BAM/CRAM files using samtools and pysam. Use when enabling random access to alignment files or fetching specific genomic regions.
Detects allele-specific transcription factor or histone modification binding from heterozygous-variant ChIP-seq using WASP (reference-bias filter; mandatory upstream), RASQUAL…
Install a fast local task workflow for single-project planning with `scripts/task.sh` (claim, done, status, reporting) backed by `tasks/TASKS.md` and optional `tasks/details/`…
Create detailed implementation plans with granular tasks. Use before implementing features or complex changes.
Modern SwiftUI toolbar patterns including customizable toolbars, search integration, transition effects, and platform-specific behavior.
Reviews plot structure, story beats, logic flow, and narrative continuity to identify contradictions, plot holes, pacing issues, or unrealistic elements.
Git operations, shell scripting, CI/CD pipelines, and terminal automation. Use for conventional commits, PowerShell/Bash scripting, configuring GitHub Actions, or automating…
Build automated AI workflows combining multiple models and services. Patterns: batch processing, scheduled tasks, event-driven pipelines, agent loops.
Guide for breaking changes into logical, atomic commits using interactive staging. Use when committing changes that span multiple concerns, when needing to stage parts of files…
Create production-ready Kubernetes manifests for Deployments, Services, ConfigMaps, and Secrets following best practices and security standards.
Create publication-quality scientific diagrams using Nano Banana Pro AI with smart iterative refinement. Uses Gemini 3 Pro for quality review.
Professional PowerPoint presentation creation, editing, and automation with support for layouts, templates, charts, images, and formatting.
Joint genotype calling across multiple samples using GATK CombineGVCFs and GenotypeGVCFs. Essential for cohort studies, population genetics, and leveraging VQSR.
Neuropixels neural recording analysis. Load SpikeGLX/OpenEphys data, preprocess, motion correction, Kilosort4 spike sorting, quality metrics, Allen/IBL curation, AI-assis — from…
Designs covalent inhibitors and warheads targeting cysteine (most common, 98% of covalent drugs), lysine, serine, threonine, tyrosine, and aspartate residues, with explicit…
Electronic lab notebook API integration. Access notebooks, manage entries/attachments, backup notebooks, integrate with Protocols.io/Jupyter/REDCap, for programmatic ELN — from…
Core component library and design system patterns. Use when building UI, using design tokens, or working with the component library. — from bg-szy/TOP-SKILLS
Search ClinicalTrials.gov with natural language queries. Find clinical trials, enrollment, and outcomes using Valyu semantic search.
Reconstruct cell lineage trees from CRISPR barcode tracing or mitochondrial mutations. Use when studying clonal dynamics, cell fate decisions, or developmental trajectori — from…
Web search and content extraction with Tavily and Exa via inference.sh CLI. Apps: Tavily Search, Tavily Extract, Exa Search, Exa Answer, Exa Extract.
Filter alignments by flags, mapping quality, and regions using samtools view and pysam. Use when extracting specific reads, removing low-quality alignments, or subsetting — from…