# Gdc

> NCI Genomic Data Commons (GDC) MCP.

- name: io.github.pipeworx-io/gdc
- version: 0.1.2
- connection class: R0 (autonomous)
- trust: 96/100
- quality: –/100 (not scored)
- owner: not claimed
- descriptor: https://api.protogrid.dev/v1/servers/io.github.pipeworx-io%2Fgdc
- tools: https://api.protogrid.dev/v1/servers/io.github.pipeworx-io%2Fgdc/tools

**An agent can connect right now, no human step.** Remote endpoint, no authentication, reachable on the last probe.

## Connection (mcpServers)

```json
{
  "mcpServers": {
    "gdc": {
      "type": "http",
      "url": "https://gateway.pipeworx.io/gdc/mcp"
    }
  }
}
```


## Trust

- hygiene: 100
- liveness: 100
- freshness: 100
- provenance: 85
- drivers: +repository +namespace-matches-repo +website -thin-description +reachable +uptime-99% +updated-24d-ago
- Derived from observable signals (official registry feed and our own credential-free probes); no code audit performed.

## Quality –/100 (not scored)

Not scored: fewer than three checks apply, usually because no remote answered a credential-free probe or the server is a local package.

### protocol: 75 (weight 25)

- warn `protocol.modern`: newest supported version is 2025-03-26; 2026-07-28 not supported, older versions are deprecated until 2027-07-28
- n/a `protocol.stateless`: only applies to 2026-07-28 servers
- pass `protocol.transport`: streamable HTTP
- n/a `protocol.list_ttl`: only applies to 2026-07-28 servers

### authorization: n/a (weight 15)

- n/a `auth.prm`, `auth.as_metadata`, `auth.cimd`: no remote uses OAuth
- n/a `auth.secret_in_url`: no templated URL

### tool hygiene: n/a (weight 30)

- n/a `tools.descriptions`, `tools.description_length`, `tools.schemas`, `tools.annotations`, `tools.directory_hints`, `tools.token_cost`, `tools.api_dump`: tool list unknown (behind auth, not probed, or empty)

### stability: n/a (weight 15)

- n/a `stability.changes`, `stability.rug_pull`: tool list unknown

### dependencies: n/a (weight 15)

- n/a `deps.known_vulns`, `deps.mcp_sdk_version`, `deps.resolvable`: no npm or PyPI package

- tools: unknown
- tools last changed: 2026-10-20T06:46:15.477Z
- badge: [![protogrid quality](https://protogrid.dev/badge/io.github.pipeworx-io/gdc.svg)](https://protogrid.dev/servers/io.github.pipeworx-io/gdc)
- Checks run on what our credential-free, read-only probes observe; tools are never called and no code audit is performed.

### Tool changes

- 2026-10-20 `kalshi_weather_edge` removed
  - Prices Kalshi daily high-temperature markets against the NWS forecast for the market's OWN settlement station, and measures whether that forecast actually beats the market. Two modes. LIVE (default): returns the full strike ladder for one city and settlement date with market_prob (mid), forecast_prob, and edge_pp per strike, plus the settlement clause verbatim. BACKTEST (`backtest_days: N`): scores an archived gridded forecast against the market on settled days and returns brier_market vs brier_forecast with a plain-English `verdict`, so the edge is MEASURED rather than asserted. READ THE WARNINGS — they are not boilerplate. (1) These markets DO NOT settle on the NWS. They settle on The Weather Company (weather.com) at a Kalshi station code such as CLINYC, which the response quotes verbatim; so part of every edge_pp is NWS-vs-Weather-Company disagreement about the same day at the same station, which is not mispricing and not tradeable. `settlement_vs_forecast_basis_f` from backtest mode is that part as a number. (2) The station is DERIVED from the settlement clause, never from the city name: Chicago settles at MIDWAY and New York at CENTRAL PARK, so a city-centre forecast would misprice a whole ladder. A station that cannot be resolved yields rows with no forecast and a reason, never a guessed coordinate. (3) forecast_prob assumes a normal distribution around the NWS high whose width is ASSUMED, not fitted (stated in `distribution_assumption`) — run backtest mode to see whether it is calibrated. (4) edge_pp is gross: no Kalshi fees, no bid-ask. MEASURED RESULT, AND IT IS NOT THE FLATTERING ONE: on the first backtest (KXHIGHNY, 13 settled days to 2026-09-11, 58 market observations) the MARKET beat the forecast — Brier 0.1008 for the market against 0.1594 for the archived gridded forecast, lower being better. So on that sample there is NO forecast edge to sell, and a large edge_pp is more likely to be the model disagreeing with a better-informed market than an opportunity. The measured settlement-vs-forecast basis was 1.7F mean absolute over 8 pinnable days, slightly warm-biased, which is a big share of a typical edge_pp on a 2-degree bracket. Re-run backtest_days before believing any edge; if a later sample reverses this, the numbers say so. NWS is US-only, so the ~30 international Kalshi weather series (London, Paris, Tokyo) return market prices with forecast_unavailable rather than a forecast. Precipitation series are listed but not yet priced. Cities: nyc, chicago, los angeles, miami, austin, houston, denver, philadelphia — or pass `series_ticker` for any other (e.g. "KXHIGHTBOS").
- 2026-10-20 `discover_tools` removed
  - Find tools by describing the data or task. Use when you need to browse, search, look up, or discover what tools exist for: SEC filings, financials, revenue, profit, FDA drugs, adverse events, FRED economic data, Census demographics, BLS jobs/unemployment/inflation, ATTOM real estate, ClinicalTrials, USPTO patents, weather, news, crypto, stocks. Returns the top-N most relevant tools with names, descriptions, and full input schemas (with curated examples) — each result is ready to call directly, no second schema lookup needed. Call this FIRST when you have many tools available and want to see the option set (not just one answer).
- 2026-10-20 `list_projects` removed
  - List NCI Genomic Data Commons cancer-genomics projects (TCGA, TARGET, CPTAC, etc.), ranked by case count. Returns project_id, name, program, primary site(s) and disease type(s). Keyless, open-access metadata.
- 2026-10-20 `search_cases` removed
  - Search NCI GDC cancer cases (patients/samples) by primary site and/or project. Returns case_id, submitter_id, primary site, disease type and project_id. Keyless, open-access metadata.
- 2026-10-20 `scan_dependency` removed
  - Composite "should I add this npm package to my project" check in ONE call — fans out across deps.dev (license + advisories + version history) and bundlephobia (gzipped/minified bundle size, dependency count, ESM/tree-shake support). Use whenever an agent asks "is X safe / popular / small" or "what does adding lodash cost me". Returns a summary block (is_latest, license, published_at, advisory_count, bundle_kb_min, bundle_kb_gz, dependency_count, has_esm, tree_shakeable), per-advisory detail, links, and a list of recent alternative versions. NPM ecosystem only in v1; PyPI / Maven / Cargo / Go fall under deps.dev:version directly. Partial failures degrade gracefully — bundlephobia's first measurement on a new version can take 5-30s; sources_failed will list it if it times out, the rest still returns.
- 2026-10-20 `classify_row` removed
  - Cheap categorization: given a company and a list of candidate labels, decide which labels apply — the most common GTM/AI usage shape (tagging a list by industry, ICP fit, etc.), one small model call. Same evidence contract as research_row: each label comes back {label, applies, evidence_url, quote, status: found|inferred|not_established} — "found" only when the model's quote is independently verified as a verbatim substring of the text used. Pass text directly (cheapest — no fetch) or entity.domain to fetch the homepage once as a fallback. No text and no domain means every label is not_established with no model call made.
- 2026-10-20 `polymarket_edges` removed
  - Scan top Polymarket markets and return opportunities where Pipeworx data disagrees with market price. Built for "what should I bet on today" — agents discover opportunities without paging hundreds of markets. FIVE MODEL FAMILIES grouped into three response segments under by_segment: (1) MODEL_DRIVEN — crypto_price (lognormal barrier from 90d FRED log-returns) and news_momentum (GDELT 7d/21d article-volume ratio, soft signal w/ halved Kelly). (2) STRUCTURAL_ARBITRAGE — partition_overround on mutually-exclusive events; per-leg favorite-longshot bias correction with per-sport α (tennis 1.02, soccer 1.10, MMA 1.15, default 1.0); placeholder-slug filter drops will-person-X / will-team-Y / will-manager-Z / will-someone-else- backstops; partitions with >20% placeholder fraction skipped entirely. (3) CONCENTRATED_LONGSHOT — basket trade when one leg ≥75% AND ≥2 longshots ≤8% AND portfolio return ≥25:1; rare-by-design (gates relaxed Run 8 from prior 85%/5%/50:1). EVERY OPPORTUNITY carries edge_pp_net (net of slippage AND Polymarket's own taker fee — fees_pp_applied itemises the fee component; see fees.ts for the published per-category schedule), kelly_fraction + kelly_fraction_half (capped at 0.25), market.liquidity, market.spread_pp, market.volume, plus a 24h-move warning ("Market moved X.Xpp in 24h") when the recent move alone exceeds the edge — your edge may already be in the price. TRADEABLE-EDGE KNOBS: min_liquidity / max_spread_pp drop opportunities where edge isn't realizable; min_partition_leg_kelly filters partitions by best per-leg Kelly. RESPONSE TOP-LEVEL: by_segment{model_driven,structural_arbitrage,concentrated_longshot}, fed_candidates/fed_note (Fed bets surface here, excluded from ranking — 1m-T vs EFFR signal is unreliable at meeting-month horizons without paid OIS/SOFR-futures data), and _diagnostics{concentrated_longshot:{...funnel counters},category_counts,filter_skips} so callers can see WHY a segment is empty (top-N stale, all candidates failed gates, knob dropped them). Cached 1h at the KV level keyed on all knobs.
- 2026-10-20 `polymarket_arbitrage` removed
  - Find arbitrage opportunities on Polymarket via monotonicity violations + partition-sum checks. Call with NO args for a `trending_scan` of the top ~200 markets by weekly volume; pass `event` for the strongest per-event partition_check, or `topic` for a themed cross-event scan. `event` (recommended for a specific market): pass a Polymarket event slug like "fed-decision-may-2026" or "when-will-bitcoin-hit-150k"; walks child markets, checks date-axis / threshold-axis ordering AND computes the partition_check (sum of YES prices across mutually-exclusive legs — should ≈1; deviations >3pp emit a BUY/SELL EVERY LEG signal). `topic` (for cross-event scanning): pass a seed question like "Strait of Hormuz traffic returns to normal" or "Fed rate decision"; searches related events across the platform, flattens markets, runs the comparator on the union. Cross-event mode catches "...by May 31" vs "...by Jun 30" patterns that single-event misses. SEMANTIC ANCHOR: cross-event pairs require ≥0.30 Jaccard similarity on question tokens (prevents Powell-Fed-Pause being paired with Powell-DOJ-probe); skipped_low_similarity surfaces the rejected pair count. PARTITION FILTER: drops will-person-X / will-manager-Y / will-someone-else- placeholder slugs; partitions with >20% placeholder fraction return null arb signal. Response: opportunities[] (gap_pp, suggested_trade, reasoning, monotonicity violation context), and in event mode partition_check{sum_yes_prices, gap_from_1, placeholders_filtered, suggested_trade}. FEES: every opportunities[] row and partition_check.arbitrage carry edge_pp_gross (== gap_pp / overround_pp), fees_pp, edge_pp_net, net_positive, plus polymarket_fee_pp, fee_basis and fee_categories[]. BOTH cost components are modeled: Polymarket's own per-category TAKER FEE (fee = shares × rate × p × (1-p), rates crypto 0.07 / sports-economics-culture-weather-other 0.05 / finance-politics-mentions-tech 0.04, geopolitics and world events fee-free; verified against Polymarket's own docs as of 2026-09-13) and Polygon gas (~$0.02/leg). The taker fee dominates: ~$1.75 per 100 shares on a crypto market at 50c versus $0.02 of gas, so rows that looked profitable before fleet #1927 may now show net_positive:false — that is the correction, not a regression. Each leg is priced at ITS OWN market's rate and price (the fee curve peaks at 50c and falls toward both extremes). fee_basis says where the rate came from: 'payload' (read off the market, the normal case), 'category' (mapped from its fee category), 'fee_free', or 'fallback' (rate unknown — charged at the modal 0.05 rather than assumed free, so an unreadable market is never reported as costless). Where fill_check reprices against live depth, this does NOT double-count that spread cost. FILL CHECK: when the partition signal fires, arbitrage.fill_check prices it against live CLOB depth (theoretical_edge_pp_at_book vs realizable_edge_pp at 1000 shares/leg, thin_legs[]) — realizable_edge_pp ≤ 0 means the overround exists only at last-trade, not in the book; do not trade it. For custom sizing use polymarket_fill_risk.
- 2026-10-20 `validate_claim` removed
  - "Is it true that…" / "fact check" / "verify the claim that…" / "did X really…" / "was Y actually…" / "confirm or refute" / "true or false" — natural-language claim verification against authoritative sources. Use whenever the agent needs to check whether something a user said is factually correct. Company-financial claims (revenue, net income, cash for public US companies) verify via the structured SEC EDGAR + XBRL fast path with exact percent-delta math; ANY OTHER factual claim (macro statistics, rates, prices, drug data, records) automatically falls through to the grounded pipeline — routed to the right live source, answered with verbatim evidence, then judged. Returns a verdict (confirmed / approximately_correct / refuted / inconclusive / unsupported / could_not_verify), the grounded or structured actual value with pipeworx:// citation, and reasoning. IMPORTANT for callers: could_not_verify means the check did not happen (our LLM or source failed) and carries verification_error{stage,detail} — it is NOT evidence for or against the claim, and must not be shown as one. unsupported means we looked and cover no source for it. Replaces 4–6 sequential calls (NL parsing → entity resolution → data lookup → comparison).
- 2026-10-20 `ask_pipeworx_grounded` removed
  - Hallucination-resistant answer mode for high-stakes reads. Same routing as ask_pipeworx — picks the right tool from 7,013 across 1847 sources, fills arguments, fetches the data — then EXTRACTS the answer using ONLY what the tool result contains. Returns {answer, evidence (verbatim quote), confidence, source, fetched_at, refusal_reason:null} on success, OR an explicit refusal {answer:null, refusal_reason:"not_in_source"|"no_tool_match"|"tool_error"|"data_truncated"|"llm_error"} when the data doesn't directly answer. Use whenever an answer will be quoted, cited, or acted on, and the agent must not invent facts (financial verdicts, legal claims, medical lookups, public statements). Costs one extra LLM call vs ask_pipeworx — prefer ask_pipeworx for casual lookups.

Full history: https://api.protogrid.dev/v1/servers/io.github.pipeworx-io%2Fgdc/changes

## Remotes

- https://gateway.pipeworx.io/gdc/mcp (streamable-http, auth none, reachable true, uptime30d 0.99159664)

## Packages

_none_

## Tools (0)

_none observed_