LLM Mart Basic
@llm-mart · Joined Jun 2026
The Checkpoint Harmony Email (Avanan) whitelist and blacklist surface: the match fields and matching modes an exception accepts, the defaults that widen an entry beyond what was typed, the id mismatch between listing and editing, and the standing security consequence of a detecti
Discover and compare Jev and TypeSafe SDKs, integrations, applications, and evaluations. Use when selecting public resources for a typed-decision workflow or checking what evidence exists for a Jev claim.
Flint · local-skills-hub — a local-first personal AI skills asset manager. Centralize, tag, deduplicate skills, and deploy them into agent and project directori…
Inspect PDF, Microsoft Office (docx/xlsx/pptx and legacy doc/xls/ppt), and Apple iWork (key/numbers/pages) files without opening or rendering them. Use for page and slide and sheet counts, title/author/created metadata, encryption and macro and digital-signature and JavaScript ri
A coding agent harness built specifically for Motif-3
Build comprehensive chromatin accessibility maps by aggregating ATAC-seq and DNase-seq narrowPeak data across multiple ENCODE experiments, donors, and labs. Use when the user wants to answer "where is chromatin accessible in my tissue?" by combining peak calls into a union peak s
Guide for multi-experiment batch operations: QC screening, batch download, comparison, and report generation across many ENCODE experiments simultaneously. Use when users need to process 5+ experiments together, create experiment comparison tables, perform batch quality checks, o
Install bioinformatics tools for ENCODE data analysis. Covers CLI tools (BWA, STAR, samtools, MACS2), R/Bioconductor packages (DESeq2, Seurat, ChIPseeker), Python packages (Scanpy, deeptools), and Nextflow pipeline infrastructure. Generates conda environments, R install scripts,
Guide for integrating CellxGene Census single-cell data with ENCODE bulk experiments. Use when users need cell-type-specific expression context for ENCODE regulatory data, want to deconvolve bulk ENCODE signals, or validate regulatory elements at single-cell resolution. Trigger o
Generate proper ENCODE citations for publications, grants, and presentations. Use when the user needs to cite ENCODE data, create bibliography entries, write acknowledgment sections, or ensure compliance with ENCODE data use policy.
Guide for annotating ENCODE regulatory variants with ClinVar clinical significance. Use when users need to check if variants in ENCODE peaks have clinical associations, find pathogenic variants in regulatory regions, or assess variant clinical impact. Trigger on: ClinVar, clinica
Compare ENCODE experiments across different biosamples, tissues, or cell lines to identify tissue-specific regulatory patterns. Use when the user wants cross-tissue comparison, cell-type comparison, tissue-specific elements, differential chromatin, biosample matching, disease vs
Cross-reference ENCODE data with PubMed, bioRxiv, ClinicalTrials.gov, Open Targets, GTEx, ClinVar, GWAS Catalog, gnomAD, Ensembl, and other scientific databases. Use when the user wants to find publications, preprints, or clinical trials related to ENCODE experiments, chain ENCOD
Use ENCODE functional genomics data for disease mechanism research. Use when the user wants to connect GWAS variants to regulatory elements, annotate disease-associated loci with functional data, identify therapeutic targets from epigenomic data, build disease regulatory models,
Download ENCODE genomics files (BED, FASTQ, BAM, bigWig, etc.) to the user's machine. Use when the user wants to download data files from ENCODE experiments.
Query the Ensembl REST API for regulatory feature annotations, variant effect prediction (VEP), coordinate liftover, gene lookups, and cross-references. Use when the user needs to annotate variants with VEP (consequence, CADD, REVEL, SpliceAI), check Ensembl Regulatory Build over
Build comprehensive epigenomic profiles for tissues or cell types using ENCODE data. Use when the user wants to characterize chromatin states, assemble histone modification panels, create epigenomic landscapes, run ChromHMM segmentation, identify super-enhancers or bivalent domai
Analyze ENCODE functional genomics screens including CRISPR screens, MPRA (Massively Parallel Reporter Assays), and STARR-seq. Find screen data in ENCODE, process results, identify functional elements, and integrate with epigenomic annotations.
Search, query, and cross-reference NCBI GEO (Gene Expression Omnibus) datasets with ENCODE experiments. Use when the user wants to find GEO accessions for ENCODE experiments, search GEO for complementary datasets, download GEO metadata or series matrices, cross-reference ENCODE a
Query gnomAD (Genome Aggregation Database) for population allele frequencies, gene constraint scores, and variant annotations to interpret ENCODE regulatory variants. Use when the user needs allele frequencies for variants in ENCODE regulatory elements, wants to assess gene const
Treat an AI agent skill as both an instruction package and a software dependency: inspect what it says, what it runs, what it can access, and how it updates.
Add remote HTTP or local stdio MCP servers to Claude Code, choose the right scope, protect credentials, verify the connection, and test with least privilege.
Skills teach Claude a repeatable method, connectors provide governed access to apps and live data, and plugins package related capabilities for installation and sharing.
Use an agent skill to package reusable know-how and workflow instructions. Use an MCP server when an agent needs live, governed access to external data or actions.
Custom commands and skills can both create a slash-invoked workflow in Claude Code. The important choice is how the workflow is discovered, shared, and permissioned.
A useful Claude skill solves one recurring engineering job, is easy to inspect, and saves more time than it creates in setup and review.
Claude skills can live in your Claude account, your local Claude Code setup, or a repository. Install them where the sessions that need them can load them.
Build a portable AI agent skill from one repeatable job: a precise description, concise instructions, focused resources, and tests that prove it works.
AI agent skills package instructions, scripts, references, and templates into portable folders an agent loads only when the task calls for them.
AI made publishing cheap, which is exactly the problem. What separates a page worth ranking from a competent summary of the first ten results.
A prompt that works once isn't a quality system. Five cases, an observable rubric, and a regression set will tell you whether a change helped.
One character of YAML, four pods that never started, and two safety nets I didn't know were holding. Every restart is an audit. Schedule them before they schedule you.
"Verify your work" isn't an instruction. It's a mood. Here's the version that's an instruction. Verify with a different mechanism than the one that made the claim.
A prompt that works once may still fail in production. A lightweight eval set gives you repeatable cases, a clear rubric, and a way to see whether a prompt change actually improved the workflow.
The best AI tool is not the one with the longest feature list. It is the one that solves a defined job reliably, fits the workflow, handles data appropriately, and remains useful after the novelty wears off.
Use AI to speed research without losing trust. Learn to find primary sources, verify claims, preserve uncertainty, and keep an auditable source trail.
Better prompts aren't magic wording. They're short briefs that hand the model a task, the context it can't infer, the limits, and a quality bar.
A green PR, a controller reporting success, and not one line of the new code running
/lineage-discovery
Lineage discovery
Discover testnet↔mainnet subnet lineage from repo configs and open a PR for review (pass --dry-run to report only)
/capture
capture
Triage raw inbox notes into reviewed repository destinations without deleting their sources.
/clean-ai-writing
clean-ai-writing
Audit and rewrite content to remove AI writing patterns
/content-shipped
content-shipped
Log a completed piece of content to content/log.md after the user confirms it was published.
/dream-apply
dream-apply
Validate a dream artifact, review each proposal, and apply only individually accepted changes.
/dream
dream
Run a curator pass against the validated memory directory and produce a proposal artifact.
/end
end
End a session — log what happened, update state and the decision log, propose memory updates, and check for uncommitted or unpushed work
/find-context
find-context
Find relevant context files by topic. Use when you need to load files for a topic without a slash command, or when a task spans multiple domains.
/migrate-gemini
migrate-gemini
Inventory and migrate selected Gemini CLI workflows with dry-run review and parity checks.
/mine-gemini-workflows
mine-gemini-workflows
Find repeated workflows in selected Gemini CLI sessions and draft portable skills after review.
/reconcile
reconcile
Scan multi-session drift and offer individually reviewed fixes only after explicit approval.
/recover
recover
Scan orphaned worktrees and stale branches, then offer explicit approval-gated cleanup.
/setup
setup
Guided onboarding or import for durable workspace context
/start
start
Start a session — load state files, flag staleness, and give a briefing on current priorities, deadlines, and blockers
/today
today
Create a morning heartbeat from repository state and update the local heartbeat log.
/update
update
Mid-session checkpoint — append progress to today's session log and update state files if a priority shifted, without ending the session
/distribution-audit
distribution-audit
Maintainer-only. Find every file that would newly ship to adopters and decide, one file at a time, whether to ship it or withhold it. Drives the release CLI, which refuses to produce a manifest until every shipping file has an answer.
/gaia-audit
gaia-audit
Audit memory, wiki, and auto-loaded files for duplication, conflicting instructions, and stale content. The default path researches, then asks you a single Apply / Discuss / Decline question; on Apply it applies the report, files any out-of-scope problem as a tech-debt issue, then commits, opens a PR, and merges it on a main-branch run like /update-deps. Pass --apply to re-run the apply-and-publish stage against the most recent report.
/gaia-debt
gaia-debt
Fix the tech-debt backlog, a single issue or a recommended related batch, highest severity then oldest first, on a fresh isolated branch through the audit gate, closing the issue(s) on merge. Pass `list` to see the ordered backlog, `why <issue-number>` to explain the recommendation, or a bare `<issue-number>` to fix that issue directly.
/gaia-fitness
gaia-fitness
Health-check and auto-heal this project's Claude integration, triage, heal, verify, and report an F-to-A+ grade.
MCP server for reusable prompt templates, multi-step workflow chains, and quality gates. Compose agentic workflows with an operator syntax; export as native ski…
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