DevOps e Infra

Automated code review and security linting integration for CI/CD pipelines using reviewdog. Aggregates findings from multiple security and quality tools (SAST, linters, formatters) into unified code review comments on pull requests. Use when: (1) Integrating security scanning into code review workflows, (2) Automating security feedback on pull requests, (3) Consolidating multiple tool outputs into

Annotates ChIP-seq peaks to genomic features, nearest genes, ENCODE candidate cis-regulatory elements (cCREs), and regulatory domains. Uses ChIPseeker (R), HOMER annotatePeaks.pl (CLI), pyranges (Python), GREAT/rGREAT (regulatory domain gene-set enrichment), ChIP-Enrich (locus-length-adjusted), ENCODE SCREEN cCRE classification (PLS/pELS/dELS/CTCF-only/DNase-H3K4me3), and ENCODE-rE2G for cell-type

Padrões de design e implantação de infraestrutura em nuvem para AWS, Azure e

Pre-deployment validation checklist and automated readiness assessment.

ATAC-seq library quality control -- TSS enrichment, FRiP, fragment-size periodicity, library complexity (NRF/PBC1/PBC2), mitochondrial fraction, and ENCODE 4 thresholds. Use when assessing whether an ATAC-seq library passes ENCODE acceptance criteria, diagnosing transposition artefacts, comparing Omni-ATAC vs standard prep quality, or selecting which replicates to drop before peak calling.

Pre-commit hooks framework for multi-language code quality automation. USE WHEN setting up pre-commit OR configuring git hooks OR adding linting OR code formatting OR security scanning OR Terraform validation OR Kubernetes manifests OR Helm charts OR Python linting OR JavaScript formatting. Manages .pre-commit-config.yaml, hook installation, and CI integration.

Creates sashimi plots showing RNA-seq read coverage and splice junction counts using ggsashimi or rmats2sashimiplot. Visualizes differential splicing events with grouped samples and junction read support. Use when visualizing specific splicing events or validating differential splicing results.

Materials science toolkit. Crystal structures (CIF, POSCAR), phase diagrams, band structure, DOS, Materials Project integration, format conversion, for computational materials science.

Remove AI-generated code slop from a branch. Use when cleaning up AI-generated code, removing unnecessary comments, defensive checks, or type casts. Checks diff against main and fixes style inconsistencies.

Especialista em configuração de hooks do Claude Code. Use ao criar hooks para o Claude Code.

Configura o Alchemy (Infrastructure-as-TypeScript) em qualquer base de código, seja para novos projetos ou para adicionar a aplicativos existentes. Ele conecta provedores Cloudflare/AWS, backend de estado, segredos e tipos de ligação de ponta a ponta com rigorosa higiene de segredos.

Structured investigation and troubleshooting for production incidents, build failures, performance issues, and mysterious bugs. Use when the user says 'debug this', 'why is this failing', 'investigate this issue', 'troubleshoot', 'production is down', 'this is broken and I don't know why', 'help me find the root cause', 'postmortem', 'incident response', or 'something is wrong'. Also triggers on '