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Monarch Initiative

by io.github.pipeworx-io
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Monarch Initiative MCP — biomedical knowledge graph.

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Status
Unhealthy
Uptime
25.8% over 60 days
Last Tested
Transport
Streamable HTTP
URL
Repository
pipeworx-io/mcp-monarch-initiative
GitHub Stars
0
Server Listing
mcp-monarch-initiative

TDQS

B3.4/5.0

Scored across 41 tools

Disambiguation2/5

Several tools are nearly indistinguishable: ask_pipeworx and ask_pipeworx_beta are explicitly identical routers, and the prediction-market family (bet_research, polymarket_arbitrage, polymarket_edges, polymarket_fill_risk, polymarket_edge_tracker, polymarket_kalshi_spread) all hunt for similar mispricing opportunities with heavy description overlap. The finance trio (entity_profile, company_facts, recent_changes) also shares boundary cases. Only the Monarch KG tools (search, entity, associations, gene_to_disease, phenotype_to_gene) are cleanly distinct.

Naming Consistency2/5

No consistent pattern: some tools use verb_noun (generate_llms_txt, resolve_entity, validate_claim), others are bare nouns (associations, entity, entity_profile), and several are noun_noun compounds (company_facts, bet_research, polymarket_arbitrage, pipeworx_trending, release_calendar_markets). Verb styles vary wildly across ask/bet/compare/discover/recall/remember/scan/search. While everything is snake_case, there is no predictable morphology to guess tool names from.

Tool Count2/5

41 tools is well past the 25+ threshold for 'too many,' and the count is inflated by serving at least five unrelated domains (biomedical KG, general data lookup, prediction markets, subscription management, memory/utilities). Each subdomain is reasonably scoped on its own, but exposed as one server the surface is heavy and unfocused.

Completeness2/5

The server name promises Monarch biomedical coverage, yet only 5 of 41 tools serve that domain and obvious gap types exist (no gene_to_phenotype, no disease-to-gene reverse, no variant/orthology associations). The Pipeworx and prediction-market slices are comparatively complete within their own scopes, but the overall surface is incoherent — a user arriving for Monarch gets a mixed bag with no clear lifecycle coverage for a single domain.

Tool Schema Changelog

Recent tool additions, removals, and schema changes observed during successful MCP inspections.

  1. 29 tool updates
    • Changedai_visibility_check1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "entity": "Tesla"
+  }
+]
    • Changedask_pipeworx3 fields changed
      • addedInput schema / properties / ask
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / message
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • changedInput schema / properties / question / description
        Previous value: -"Your question or request in natural language. Accepts query, q, prompt, text, input as aliases."New value: +"Your question or request in natural language. Accepts query, q, prompt, text, input, ask, message as aliases."
    • Changedask_pipeworx_beta4 fields changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "question": "What is the current US unemployment rate?"
+  }
+]
      • addedInput schema / properties / ask
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / message
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • changedInput schema / properties / question / description
        Previous value: -"Your question or request in natural language. Accepts query, q, prompt, text, input as aliases."New value: +"Your question or request in natural language. Accepts query, q, prompt, text, input, ask, message as aliases."
    • Changedask_pipeworx_grounded4 fields changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "question": "What was Apple's fiscal 2023 revenue?"
+  }
+]
      • addedInput schema / properties / ask
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / message
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • changedInput schema / properties / question / description
        Previous value: -"Your question in natural language. Accepts query, q, prompt, text, input as aliases."New value: +"Your question in natural language. Accepts query, q, prompt, text, input, ask, message as aliases."
    • Addedcompany_facts
    • Changedcompare_entities1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "type": "company",
+    "values": [
+      "AAPL",
+      "MSFT"
+    ]
+  }
+]
    • Changeddeep_research9 fields changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "depth": "quick",
+    "question": "What is the current US unemployment rate and how has it changed over the past year?"
+  }
+]
      • addedInput schema / properties / ask
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / input
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / message
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / prompt
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / q
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • addedInput schema / properties / query
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
      • changedInput schema / properties / question / description
        Previous value: -"The research question, in natural language. Broad/multi-part is fine — decomposition is the point."New value: +"The research question, in natural language. Broad/multi-part is fine — decomposition is the point. Accepts query, q, prompt, text, input, ask, message as aliases."
      • addedInput schema / properties / text
        Added value: +{
+  "description": "Alias for question.",
+  "type": "string"
+}
    • Changedentity_profile1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "type": "company",
+    "value": "AAPL"
+  }
+]
    • Changedforget4 fields changed
      • addedInput schema / properties / k
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • changedInput schema / properties / key / description
        Previous value: -"Memory key to delete"New value: +"Memory key to delete. Accepts name, k, label as aliases."
      • addedInput schema / properties / label
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • addedInput schema / properties / name
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
    • Changedgenerate_llms_txt1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "url": "https://pipeworx.io"
+  }
+]
    • Addedkalshi_weather_edge
    • Changedpipeworx_feedback1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "message": "Fleet #2184 smoke test: verifying pipeworx_feedback example call returns non-empty.",
+    "type": "other"
+  }
+]
    • Changedpipeworx_trending1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "window": "7d"
+  }
+]
    • Changedpolymarket_arbitrage1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "topic": "Fed rate decision"
+  }
+]
    • Changedpolymarket_edge_tracker1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "days": 14,
+    "window": "1wk"
+  }
+]
    • Changedpolymarket_edges3 fields changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "limit": 5,
+    "window": "1wk"
+  }
+]
      • changedInput schema / properties / min_edge_pp / description
        Previous value: -"Minimum |edge| in percentage points to include (default 0.5). Edge is evaluated NET of slippage."New value: +"Minimum |edge| in percentage points to include (default 0.5). Edge is evaluated NET of slippage and Polymarket's own taker fee."
      • changedInput schema / properties / slippage_pp / description
        Previous value: -"Assumed execution slippage in percentage points per leg (default 0.3). Subtracted from raw |edge| before ranking and Kelly sizing. Polymarket has zero trading fees as of 2024 but bid/ask + thin depth typically eats 20-50bp per trade. Bump for very thin partitions; drop to 0 if you have a smarter fill model."New value: +"Assumed execution slippage in percentage points per leg (default 0.3), for bid/ask + thin depth cost that a last-trade price does not show. Subtracted from raw |edge| before ranking and Kelly sizing, ON TOP OF Polymarket's own taker fee — which is NOT zero (rate 0.04-0.07 depending on category, read off each market's own published fee schedule; see fees_pp_applied on every row and fees.ts for the full schedule). Bump slippage for very thin partitions; drop to 0 if you have a smarter fill model — the fee still applies regardless."
    • Changedpolymarket_fill_risk1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "market": "will-the-fed-increase-interest-rates-by-25-bps-after-the-december-2026-meeting-20260729232808636",
+    "side": "buy_yes",
+    "size_usd": 1000
+  }
+]
    • Changedrecall4 fields changed
      • addedInput schema / properties / k
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • changedInput schema / properties / key / description
        Previous value: -"Memory key to retrieve (omit to list all keys)"New value: +"Memory key to retrieve (omit to list all keys). Accepts name, k, label as aliases."
      • addedInput schema / properties / label
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • addedInput schema / properties / name
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
    • Changedrecent_changes1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "since": "30d",
+    "type": "company",
+    "value": "AAPL"
+  }
+]
    • Addedrelease_calendar_markets
    • Changedremember10 fields changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "key": "target_ticker",
+    "value": "AAPL"
+  }
+]
      • addedInput schema / properties / content
        Added value: +{
+  "description": "Alias for value.",
+  "type": "string"
+}
      • addedInput schema / properties / data
        Added value: +{
+  "description": "Alias for value.",
+  "type": "string"
+}
      • addedInput schema / properties / k
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • changedInput schema / properties / key / description
        Previous value: -"Memory key (e.g., \"subject_property\", \"target_ticker\", \"user_preference\")"New value: +"Memory key (e.g., \"subject_property\", \"target_ticker\", \"user_preference\"). Accepts name, k, label as aliases."
      • addedInput schema / properties / label
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • addedInput schema / properties / name
        Added value: +{
+  "description": "Alias for key.",
+  "type": "string"
+}
      • addedInput schema / properties / text
        Added value: +{
+  "description": "Alias for value.",
+  "type": "string"
+}
      • addedInput schema / properties / v
        Added value: +{
+  "description": "Alias for value.",
+  "type": "string"
+}
      • changedInput schema / properties / value / description
        Previous value: -"Value to store (any text — findings, addresses, preferences, notes)"New value: +"Value to store (any text — findings, addresses, preferences, notes). Accepts content, text, data, v as aliases; a non-string value is stored as JSON."
    • Addedresolution_audit
    • Addedresolution_diff
    • Changedresolve_entity1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "type": "company",
+    "value": "AAPL"
+  }
+]
    • Changedscan_competitor_ai_presence1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "entities": [
+      "Pipeworx",
+      "Zapier"
+    ]
+  }
+]
    • Changedscan_dependency1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "package": "left-pad"
+  }
+]
    • Changedsearch_within1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "query": "supply-chain risk",
+    "text": "Apple Inc. reported fiscal 2023 revenue of $383.285 billion, driven by strong iPhone and Services growth. Net income was $96.995 billion. The company faced supply-chain risk in China during the quarter."
+  }
+]
    • Changedsuggest_questions1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "topic": "finance"
+  }
+]
    • Changedvalidate_claim1 field changed
      • addedInput schema / examples
        Added value: +[
+  {
+    "claim": "Apple's fiscal 2023 revenue was $383 billion"
+  }
+]
  2. 2 tool updates
    • Changedbet_research2 fields changed
      • changedInput schema / examples
        Previous value: -[
-  {
-    "market": "when-will-bitcoin-hit-150k"
-  },
-  {
-    "market": "https://polymarket.com/event/when-will-bitcoin-hit-150k"
-  }
-]New value: +[
+  {
+    "market": "will-kristi-noem-win-the-2028-republican-presidential-nomination"
+  },
+  {
+    "market": "https://polymarket.com/event/will-kristi-noem-win-the-2028-republican-presidential-nomination"
+  }
+]
      • changedInput schema / properties / market / description
        Previous value: -"Polymarket slug (\"when-will-bitcoin-hit-150k\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k?\"). Dated slugs stop resolving once they settle — Polymarket de-indexes resolved markets — so prefer an undated one."New value: +"Polymarket slug (\"will-kristi-noem-win-the-2028-republican-presidential-nomination\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k?\"). Dated slugs stop resolving once they settle — Polymarket de-indexes resolved markets — so prefer an undated one."
    • Changedpolymarket_kalshi_spread1 field changed
      • changedInput schema / examples
        Previous value: -[
-  {
-    "topic": "fed"
-  },
-  {
-    "topic": "btc"
-  }
-]New value: +[
+  {
+    "topic": "fed"
+  },
+  {
+    "topic": "btc"
+  },
+  {
+    "topic": "bitcoin"
+  },
+  {
+    "topic": "fed rate decision"
+  }
+]
  3. 2 tool updates
    • Changedbet_research2 fields changed
      • changedInput schema / examples
        Previous value: -[
-  {
-    "market": "will-bitcoin-reach-100k-in-july-2026"
-  },
-  {
-    "market": "https://polymarket.com/event/will-bitcoin-hit-150k-by-june-30-2026"
-  }
-]New value: +[
+  {
+    "market": "when-will-bitcoin-hit-150k"
+  },
+  {
+    "market": "https://polymarket.com/event/when-will-bitcoin-hit-150k"
+  }
+]
      • changedInput schema / properties / market / description
        Previous value: -"Polymarket slug (\"will-bitcoin-hit-150k-by-june-30-2026\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k by June 30?\")"New value: +"Polymarket slug (\"when-will-bitcoin-hit-150k\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k?\"). Dated slugs stop resolving once they settle — Polymarket de-indexes resolved markets — so prefer an undated one."
    • Changedpolymarket_kalshi_spread1 field changed
      • changedInput schema / properties / topic / description
        Previous value: -"Pre-mapped: fed | btc | cpi | gdp | sp500 | recession | next_pope | next_uk_pm | next_israel_pm | 2028_president"New value: +"Subject to compare. Canonical keys: fed | btc | eth | cpi | gdp | sp500 | recession | next_pope | next_uk_pm | next_israel_pm | 2028_president — but aliases and keywords resolve too (\"bitcoin\", \"fed rate decision\", \"ethereum\", \"inflation\", \"s&p 500\", \"us recession\", \"next pope\", \"2028 election\"). Check resolution.topic_matched_by in the response: \"exact\"/\"alias\" is a curated pairing, \"phrase\"/\"token\" is a keyword guess."

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