Code Review
Automated code review and analysis
bio-atac-seq-differential-accessibility
by GPTomics
Find differentially accessible chromatin regions between conditions using DiffBind or DESeq2. Use when comparing chromatin accessibility between treatment groups, cell types, or developmental stages in ATAC-seq experiments.
bio-reaction-enumeration
by GPTomics
Enumerates chemical libraries through reaction SMARTS transformations using RDKit. Generates virtual compound libraries from building blocks using defined chemical reactions with product validation. Use when creating combinatorial libraries or enumerating products from synthetic routes.
bio-duplicate-handling
by GPTomics
Mark and remove PCR/optical duplicates using samtools fixmate and markdup. Use when preparing alignments for variant calling or when duplicate reads would bias analysis.
bio-alignment-sorting
by GPTomics
Sort alignment files by coordinate or read name using samtools and pysam. Use when preparing BAM files for indexing, variant calling, or paired-end analysis.
bio-splicing-qc
by GPTomics
Assesses RNA-seq data quality for splicing analysis including junction saturation curves, splice site strength scoring, and junction coverage metrics using RSeQC. Use when evaluating data suitability for splicing analysis or troubleshooting low event detection.
parallel-dispatch
by jmagly
Result schema: schemas/dispatch-result.schema.json
gate-evaluation
by jmagly
Validator agents: agents/
voice-analyze
by jmagly
Generator: ../voice-create/scripts/voice_generator.py
review-synthesis
by jmagly
Escalation procedures: docs/escalation-process.md
Workspace Health Check Skill
by jmagly
/check-traceability - Verify requirement links
security-assessment
by jmagly
Security templates: templates/security/
qa-protocol
by jmagly
QA templates: templates/governance/qa-checklist.md
content-driven-development
by adobe
Apply a Content Driven Development process to AEM Edge Delivery Services development. Use for ALL code changes - new blocks, block modifications, CSS styling, bug fixes, core functionality (scripts.js, styles, etc.), or any JavaScript/CSS work that needs validation.
analyze-and-plan
by adobe
Analyze development requirements and define acceptance criteria for AEM Edge Delivery Services tasks. Handles new blocks, variants, modifications, bug fixes, and styling changes with task-specific guidance.
pr-commiter
by regenrek
Agentic PR committer with deterministic commits, enforced branch/PR workflow, and explicit paths (no git add .).
git-safe-workflow
by regenrek
Safely inspect, stage, commit, and (only if asked) push changes made by an AI agent. Use for commit/push requests, end-of-task checkpoints, merge conflict resolution, worktree safety checks, or deciding whether to use git commit --amend.
grace-execute
by osovv
"Execute the full GRACE development plan step by step, generating code for each pending module with validation and commits. Use when the architecture is planned and you want to generate all modules sequentially with review checkpoints."
logophile
by tkersey
"Precision copy edits + naming: compress and clarify without changing meaning. Triggers: $logophile, rewrite/reword/rephrase, shorten, rename titles/labels/headings. Avoid operational scope/validation tasks unless rewriting is explicit."
commit
by tkersey
Create micro-commits (minimal incision) with at least one validation signal per commit. Use when requests say "split this into micro commits," "stage only the minimal change and commit," "keep commits tiny while checks pass," or when parallel workers/slices need isolated, reviewable commits.
git-best-practices
by NeverSight
Git workflow patterns for commits, branching, PRs, and history management across heterogeneous repositories. Use when creating commits, managing branches, opening pull requests, or rewriting history. Do not use for non-git implementation tasks or repo-specific release policy decisions without repository documentation.
specalign
by NeverSight
Align spec files with implementation. Detects drift between spec and code, surfaces discrepancies, user decides whether to update spec or code. Use when both a spec file and its implementation are in context.
nix-best-practices
by NeverSight
Nix patterns for flakes, overlays, unfree handling, and binary overlays. Use when working with flake.nix or shell.nix.
data-driven-testing
by NeverSight
"DEPRECATED: Use testing-best-practices instead. This skill has been retired."
nansen-perp-trader
by nansen-ai
"Deep dive on a Hyperliquid perp trader. Identity, open positions, recent trades, and overall PnL."