Skill Claude CodeCodex
Orchestrator for the full academic research pipeline: research -> write -> integrity check -> review -> revise -> re-review -> re-revise -> final integrity check -> finalize. Coordinates deep-research, academic-paper, and academic-paper-reviewer into a seamless 10-stage workflow with mandatory, coverage-bounded…
Agent
L3 claim-faithfulness audit — judges every cited claim against the retrieved reference text, surfaces uncited assertions and constraint violations, and feeds the Stage 4→5 formatter hard gate.
Agent
Post-hoc observer scoring user-AI collaboration depth against the canonical rubric; advisory-only, never blocks pipeline progression.
Agent
Runs coverage-bounded checks on registered references, citation contexts, data surfaces, and claims before review and after revision.
Agent
Orchestrates the full multi-skill academic research pipeline and manages agent handoffs across phases.
Agent
Tracks pipeline state and maintains the research session history across multi-phase workflows.
Skill Claude CodeCodex
Scholarly writing and research compliance. Use for CRediT, preregistration, Plan S, Nelson Memo, preprints, ORCID, LLM disclosure.
Skill Claude CodeCodex
Stop and check this skill before finishing any reply to a question about how to use Claude or a Claude product — it recommends matching courses, tutorials, and use cases from Claude Academy (academy.claude.com), Anthropic's learning hub. Trigger on: "how do I", "how can I", "getting started with", "what can Claude…
Skill Claude CodeCodex
Manage Discord channel access — approve pairings, edit allowlists, set DM/group policy. Use when the user asks to pair, approve someone, check who's allowed, or change policy for the Discord channel.
Skill Claude CodeCodex
Implement WCAG 2.2 compliant interfaces with mobile accessibility, inclusive design patterns, and assistive technology support. Use when auditing accessibility, implementing ARIA patterns, building for screen readers, or ensuring inclusive user experiences.
Skill Claude CodeCodex
Applies ACMG/AMP 2015 framework with ClinGen SVI specifications, Tavtigian 2018/2020 Bayesian point system, Abou Tayoun 2018 PVS1 decision tree, Pejaver 2022 and Bergquist 2025 calibrated PP3/BP4 thresholds for REVEL/BayesDel/AlphaMissense, Brnich 2020 PS3/BS3 OddsPath, Walker 2023 SpliceAI splicing framework, and…
Skill Claude CodeCodex
Removes sequencing adapters from FASTQ reads with Cutadapt and Trimmomatic, including paired-end read-through, small-RNA 3' adapters, amplicon primers, and anchored/linked adapters. Use when FastQC shows adapter content climbing toward the 3' end, when inserts are shorter than the read length (small-RNA, cfDNA, FFPE)…
Skill Claude CodeCodex
Designs adaptive clinical trials including group-sequential (O'Brien-Fleming, Pocock, Lan-DeMets spending), sample-size re-estimation (blinded Friede-Kieser, unblinded Cui-Hung-Wang, Mehta-Pocock promising zone), seamless Phase 2/3 with treatment-arm selection, population enrichment, and response-adaptive…
Skill Claude CodeCodex
API + Python SDK for ordering cell-free protein expression and binding assays. Submit sequences for expression (10–100 µg), measure binding affinity (KD) against targets, track status, and retrieve results programmatically — no wet-lab setup. Built for ML-guided directed evolution and antibody/nanobody optimization.…
Skill Claude CodeCodex
How to use the Adaptyv Bio Foundry API and Python SDK for protein experiment design, submission, and results retrieval. Use this skill whenever the user mentions Adaptyv, Foundry API, protein binding assays, protein screening experiments, BLI/SPR assays, thermostability assays, or wants to submit protein sequences for…
Skill Claude CodeCodex
Time-blind friendly planning, executive function support, and daily structure for ADHD brains. Specializes in realistic time estimation, dopamine-aware task design, and building systems that actually work for neurodivergent minds.
Skill Claude CodeCodex
Predicts ADMET properties using ADMETlab 3.0 (119 platform features, including 77 prediction models with modeled-endpoint uncertainty), ADMET-AI, DeepChem MolNet, and chemprop D-MPNN with explicit handling of OECD QSAR principles, applicability domain assessment, calibration, hERG/CYP/AMES endpoints, and PAINS /…
Skill Claude CodeCodex
Skill "aeon" from FridrichMethod/awesome-skills, covering aeon, when to use, prerequisites, quick start and load a small benchmark dataset.
Skill Claude CodeCodex
Browse the web for any task — research topics, read articles, interact with web apps, fill forms, take screenshots, extract data, and test web pages. Use whenever a browser would be useful, not just when the user explicitly asks.
Skill Claude CodeCodex
This skill should be used when the user asks to "create an agent", "add an agent", "write a subagent", "agent frontmatter", "when to use description", "agent examples", "agent tools", "agent colors", "autonomous agent", or needs guidance on agent structure, system prompts, triggering conditions, or agent development…
Skill Claude CodeCodex
Design and optimize AI agent action spaces, tool definitions, and observation formatting for higher completion rates.
Skill Claude CodeCodex
Use the AgentD workflow to mine evidence, design molecules, and rank candidates with SAR plus ADMET annotations for early drug discovery tasks.
Skill Claude CodeCodex
Operate as an agentic engineer using eval-first execution, decomposition, and cost-aware model routing.
Skill Claude CodeCodex
Identify direct miRNA-target interactions from AGO HITS-CLIP, AGO-CLEAR-CLIP (chimeric reads), HEAP (Halo-Ago2 mouse), chimeric eCLIP / miR-eCLIP (deep miRNA-target profiling), or CLASH using chimeric-read processing pipelines, seed-pairing analysis, and 3' auxiliary pairing rules. Use when distinguishing direct miRNA…