「discovery」の検索結果

Structure-based docking with AutoDock Vina, Vinardo, and AutoDock4 through the Meeko toolchain. Use this skill to define a docking box, prepare receptors and ligands as PDBQT, run single or batch docking, rescore, and interpret affinities, poses, and ligand efficiency. Covers box definition from a reference ligand or pocket residues, protonation and tautomer decisions, flexible side chains, exhaustiveness and seeds, redocking validation, and virtual screening over compound libraries. Also trigger on vina, smina, gnina, mk_prepare_ligand, mk_prepare_receptor, mk_export, scrub.py, PDBQT, autogrid4, docking box, or binding-pose prediction.

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Query the ChEMBL database web services for measured bioactivity data, compound records and calculated properties, targets, assays, mechanisms of action, drug indications and warnings. Use this skill to build curated SAR or QSAR datasets for a target, look compounds up by SMILES, InChIKey, name, or ChEMBL id, run similarity and substructure searches, and check what chemistry is already known against a protein. Also trigger when a query mentions ChEMBL ids (CHEMBL...), pChEMBL values, IC50/Ki/Kd/EC50 retrieval, assay confidence scores, or ebi.ac.uk/chembl.

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Retrieve protein sequences, annotation, and structures from UniProtKB, the RCSB PDB, and AlphaFold DB. Use this skill to resolve a gene or protein name to a UniProt accession, pull sequences and FASTA files, find binding sites and domains, search the PDB by UniProt accession, sequence, ligand, or text, download mmCIF/PDB coordinates and biological assemblies, fetch AlphaFold models with their pLDDT confidence, and check whether a structure is actually usable before docking or simulating it. Also trigger on UniProt accessions, PDB ids, rest.uniprot.org, search.rcsb.org, files.rcsb.org, alphafold.ebi.ac.uk, id mapping, SEQRES, or missing residues.

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Assemble the human genetic evidence for and against a target before a programme commits to it — the evidence class that most improves the odds of surviving clinical development. Use this skill to pull gnomAD constraint metrics (LOEUF, pLI, observed/expected) that show whether loss of function is tolerated in people, retrieve GWAS Catalog associations and fine-mapped credible sets for a gene, and read a natural human knockout as a safety readout. Also trigger on gnomAD, LOEUF, pLI, loss-of-function intolerance, mutational constraint, GWAS Catalog, credible set, human knockout, genetic support, or target safety dossier.

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Cofold protein-ligand, protein-protein, and nucleic-acid complexes with Boltz-2, and predict binding affinity with its trained affinity head. Use this skill to build Boltz input YAML, run structure prediction with MSAs, pocket constraints, templates, and modified residues, screen compound libraries by cofolding, and interpret confidence scores (pLDDT, pTM, ipTM, PDE) and affinity output (binder probability and log10 IC50). Also trigger on Boltz, Boltz-1, Boltz-2, cofolding, boltz predict, affinity_pred_value, affinity_probability_binary, ipTM, or open-weights AlphaFold3 alternatives.

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Plan synthetic routes and judge whether a proposed molecule can actually be made, using AiZynthFinder's Monte-Carlo tree search over template-derived reactions and a purchasable building-block stock. Use this skill to configure expansion and filter policies, choose a stock file, run route search over a candidate set, and read the returned trees — solved fraction, route depth, and which building blocks a route bottoms out in. Also trigger on AiZynthFinder, retrosynthetic tree search, synthetic accessibility, SAscore, RAscore, building-block stock, reaction template, or route scoring.

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Decide whether a protein has a pocket worth targeting, and where it is, before committing to a docking or design campaign. Use this skill to run fpocket cavity detection, rank cavities by druggability and volume, compare apo and holo conformations to spot induced fit, identify allosteric and cryptic cavities that only open in simulation, and convert a chosen cavity into the search box coordinates a docking run needs. Also trigger on fpocket, cavity detection, druggability score, alpha sphere, cryptic pocket, allosteric site, pocket volume, hotspot mapping, or undruggable target assessment.

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Access a collection of open-source molecular design and structural biology tools on the Tamarind Bio platform, via its REST API or MCP server — no local GPUs required. Tamarind bundles popular open-source models for structure prediction (AlphaFold, Boltz, Chai, ESMFold), protein, binder, and de novo design (RFdiffusion, ProteinMPNN, BoltzGen), antibody and nanobody design and developability, protein-ligand docking (DiffDock, Autodock Vina), binding-affinity prediction, MSA generation, and molecular dynamics. Use when the user mentions Tamarind or tamarind.bio, wants to run any of these open-source tools in the cloud, references app.tamarind.bio/api or the x-api-key header, or needs to submit batches of sequences for structural or biophysical characterization.

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Use Xquik in Hermes Agent for public X research, monitoring, thread summaries, creator discovery & approved actions. Not affiliated with X Corp. Use when the user requests X data or a named action. Trigger with "search X", "monitor X", "post tweet", or "X trends".

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Route one eligible transition in Proto UI's governed autonomous-maintenance protocol. Use for maintenance missions, drift discovery, finding verification, accepted remediation, independent maintenance review, run-ledger closure, or residual-risk planning. Do not use for ordinary user-directed development.

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Use these skills when you need to discover and explore data assets in the Knowledge Catalog. It allows you to search for entries, lookup specific metadata, and explore aspect types to understand your data platform's assets.

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Delegate an approved finite batch of independent engineering or research responsibilities using the operator's existing worker channel. Use for broad repository discovery, multiple search directions, repeated checks and substantial dirty work; keep coupled single tasks with one worker and explicit solo work in the main session.

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Use only for user-provided academic text, explicit scholarly claims, existing citations, or known bibliographies needing citations added, verified, replaced, extracted, or formatted. Supports claim-to-source matching, citation-support checks, replacements, and common academic citation formats. Do not use for general fact-checking, legal/journalistic citation work, open-ended 'find literature about X', topic-level exhaustive discovery, systematic-review corpus construction, PRISMA searches, or creating new research claims. Chinese: 为已有段落补参考文献、核验已有引用、替换错误引用、提取需引文论断、GB/T 7714 格式化.

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Design or improve the in-product NowStack Mobile onboarding and activation journey through focused discovery, implementation planning, and real mobile verification. Distinct from first-clone `ns-onboard`.

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Create a lean, mobile-aware Product Requirements Document for a NowStack Mobile app through interactive discovery, then save it to .agents/plan/PRD.md. Use for "write a PRD", "ns prd", "define the product", "plan my app", or as the first planning step before ns-architecture and ns-tasks. Mobile-flavored — personas, onboarding/paywall flow, platforms (iOS/Android/web), IAP vs subscription monetization, store scope. Feeds ns-init-project (site-config) and the rest of the planning pipeline.

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Call Exa Search (POST /search) for semantic web retrieval with ranked results, filters, freshness, highlights/text, structured output, or streaming. Use when the agent needs open-ended web search, competitor discovery, news, people, or research papers and does not already have URLs. Prefer Exa MCP web_search_exa / web_search_advanced_exa when available; otherwise raw HTTP with EXA_API_KEY. NOT for known-URL extraction (use exa-contents or firecrawl) or multi-step list-building (use company-research / lead-generation / Agent API).

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Call Exa Contents (POST /contents) for LLM-ready extraction from known URLs: text, highlights, summaries, links, image links, subpages, freshness-controlled crawl. Use when the agent already has URLs. Prefer Exa MCP web_fetch_exa when available; otherwise raw HTTP with EXA_API_KEY. NOT for open-ended discovery (use exa-search) or auth-walled X/Twitter (use mktg-x). For full-site crawl of a known domain, firecrawl may be better.

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Generate enriched ICP-based lead lists with Exa Agent, including structured scoring and CSV output. Use when generating leads, building prospect lists, finding companies to sell to, outbound research, or ICP-based company discovery. Triggers on leads, lead gen, prospect list, find companies, ICP, outbound list. Distinct from lead-magnet (content asset that captures emails).

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Use when brainstorming ideas, generating raw material, or starting the creative phase of a writing project. Invoke for topic exploration, idea generation, angle discovery, or producing abundant raw content before organizing.

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Use when a user needs SCI/SCIE/ESCI/SSCI journal-submission help: evidence-backed candidate-journal discovery from a title, abstract, keywords, or manuscript text; public-metric and risk lookup for a known journal; or a pre-submission compliance check of a draft against a chosen journal's Author Guidelines and same-journal conventions. Also for Chinese requests such as 选刊、投稿期刊推荐、期刊查询、中科院分区、投稿前检查、期刊要求核对. This skill produces candidates, evidence, checks, and uncertainty; it does not judge research quality, predict acceptance, choose a uniquely best journal, draft prose, or simulate peer review.

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Build Solana trading and intelligence applications combining OKX DEX aggregation with Helius infrastructure. Integration-only layer — describes when and how to compose OKX tools with Helius tools for swaps, token discovery, smart money signals, meme token analysis, and portfolio intelligence.

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Grafana Tempo provider for obz. Covers trace search, trace retrieval by ID, and extension commands for tag discovery. This skill should be used when the user mentions "Tempo", "Grafana Tempo", "TraceQL", "obz trace -p tempo", or needs to search traces from a Tempo backend.

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VictoriaTraces provider for obz. Covers trace search, trace retrieval by ID, and extension commands for service and operation discovery via the Jaeger-compatible HTTP API. This skill should be used when the user mentions "VictoriaTraces", "obz trace -p vt", or needs to search distributed traces from a VT backend.

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Jaeger provider for obz. Covers trace search, trace retrieval by ID, and extension commands for service and operation discovery. This skill should be used when the user mentions "Jaeger", "obz trace -p jg", or needs to search distributed traces from a Jaeger backend.

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