@wentorai/research-plugins 1.0.0 → 1.2.0

package/mcp-configs/academic-db/onekgpd-mcp.json

@@ -0,0 +1,20 @@
+{
+  "id": "onekgpd-mcp",
+  "name": "1000 Genomes MCP",
+  "description": "Real-time access to 1000 Genomes Project dataset",
+  "category": "academic-db",
+  "install": {
+    "runtime": "python",
+    "package": "onekgpd-mcp",
+    "command": "pip install onekgpd-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search_variants",
+    "get_population"
+  ],
+  "verified": false,
+  "source": "https://github.com/nicosantos-mcp/onekgpd-mcp"
+}

package/mcp-configs/academic-db/openedu-mcp.json

@@ -0,0 +1,20 @@
+{
+  "id": "openedu-mcp",
+  "name": "OpenEdu MCP",
+  "description": "Educational resources from OpenLibrary, Wikipedia, arXiv",
+  "category": "academic-db",
+  "install": {
+    "runtime": "python",
+    "package": "openedu-mcp",
+    "command": "pip install openedu-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "get_resource"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/openedu-mcp"
+}

package/mcp-configs/academic-db/opengenes-mcp.json

@@ -0,0 +1,20 @@
+{
+  "id": "opengenes-mcp",
+  "name": "OpenGenes MCP",
+  "description": "Aging and longevity research gene database",
+  "category": "academic-db",
+  "install": {
+    "runtime": "python",
+    "package": "opengenes-mcp",
+    "command": "pip install opengenes-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search_genes",
+    "get_gene_info"
+  ],
+  "verified": false,
+  "source": "https://github.com/nicosantos-mcp/opengenes-mcp"
+}

package/mcp-configs/academic-db/openstax-mcp.json

@@ -0,0 +1,21 @@
+{
+  "id": "openstax-mcp",
+  "name": "OpenStax Textbooks MCP",
+  "description": "OpenStax textbooks with semantic search and practice problems",
+  "category": "academic-db",
+  "install": {
+    "runtime": "python",
+    "package": "openstax-mcp-server",
+    "command": "pip install openstax-mcp-server"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "get_chapter",
+    "generate_problems"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/openstax-mcp-server"
+}

package/mcp-configs/academic-db/openstreetmap-mcp.json

@@ -0,0 +1,21 @@
+{
+  "id": "openstreetmap-mcp",
+  "name": "OpenStreetMap MCP",
+  "description": "OpenStreetMap location services and geospatial data",
+  "category": "academic-db",
+  "install": {
+    "runtime": "node",
+    "package": "open-streetmap-mcp",
+    "command": "npm install -g open-streetmap-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "geocode",
+    "get_map"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/open-streetmap-mcp"
+}

package/mcp-configs/academic-db/opentargets-mcp.json

@@ -0,0 +1,21 @@
+{
+  "id": "opentargets-mcp",
+  "name": "Open Targets MCP",
+  "description": "Open Targets Platform GraphQL for drug target discovery",
+  "category": "academic-db",
+  "install": {
+    "runtime": "python",
+    "package": "opentargets-mcp",
+    "command": "pip install opentargets-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search_targets",
+    "get_associations",
+    "get_drugs"
+  ],
+  "verified": false,
+  "source": "https://github.com/nicosantos-mcp/opentargets-mcp"
+}

package/mcp-configs/academic-db/pdb-mcp.json

@@ -0,0 +1,21 @@
+{
+  "id": "pdb-mcp",
+  "name": "Protein Data Bank MCP",
+  "description": "PDB worldwide 3D protein structure repository",
+  "category": "academic-db",
+  "install": {
+    "runtime": "node",
+    "package": "pdb-mcp-server",
+    "command": "npm install -g pdb-mcp-server"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "get_structure",
+    "get_sequence"
+  ],
+  "verified": false,
+  "source": "https://github.com/ac3xx/PDB-MCP-Server"
+}

package/mcp-configs/academic-db/smithsonian-mcp.json

@@ -0,0 +1,20 @@
+{
+  "id": "smithsonian-mcp",
+  "name": "Smithsonian Open Access MCP",
+  "description": "Smithsonian Institution Open Access museum collections",
+  "category": "academic-db",
+  "install": {
+    "runtime": "node",
+    "package": "smithsonian-mcp",
+    "command": "npm install -g smithsonian-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "get_item"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/smithsonian-mcp"
+}

package/mcp-configs/ai-platform/magi-researchers.json

@@ -0,0 +1,21 @@
+{
+  "id": "magi-researchers",
+  "name": "MAGI Researchers MCP",
+  "description": "Three AI models cross-verify for multi-perspective research",
+  "category": "ai-platform",
+  "install": {
+    "runtime": "python",
+    "package": "magi-researchers",
+    "command": "pip install magi-researchers"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "research",
+    "verify",
+    "synthesize"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/magi-researchers"
+}

package/mcp-configs/ai-platform/mcp-academic-researcher.json

@@ -0,0 +1,22 @@
+{
+  "id": "mcp-academic-researcher",
+  "name": "Academic Researcher MCP",
+  "description": "Full-stack research assistant with papers, notes, citations",
+  "category": "ai-platform",
+  "install": {
+    "runtime": "python",
+    "package": "mcp-academic-researcher",
+    "command": "pip install mcp-academic-researcher"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "take_notes",
+    "cite",
+    "analyze"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/mcp-academic-researcher"
+}

package/mcp-configs/ai-platform/open-paper-machine.json

@@ -0,0 +1,21 @@
+{
+  "id": "open-paper-machine",
+  "name": "Open Paper Machine MCP",
+  "description": "Autonomous agent for full academic paper pipeline",
+  "category": "ai-platform",
+  "install": {
+    "runtime": "python",
+    "package": "open-paper-machine",
+    "command": "pip install open-paper-machine"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "research",
+    "write",
+    "compile"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/open-paper-machine"
+}

package/mcp-configs/ai-platform/paper-intelligence.json

@@ -0,0 +1,21 @@
+{
+  "id": "paper-intelligence",
+  "name": "Paper Intelligence MCP",
+  "description": "PDF management with RAG capabilities",
+  "category": "ai-platform",
+  "install": {
+    "runtime": "python",
+    "package": "paper-intelligence",
+    "command": "pip install paper-intelligence"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "ingest",
+    "search",
+    "summarize"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/paper-intelligence"
+}

package/mcp-configs/ai-platform/paper-reader.json

@@ -0,0 +1,21 @@
+{
+  "id": "paper-reader",
+  "name": "Paper Reader MCP",
+  "description": "Search, read, and summarize arXiv papers",
+  "category": "ai-platform",
+  "install": {
+    "runtime": "python",
+    "package": "paper-reader",
+    "command": "pip install paper-reader"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "read",
+    "summarize"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/paper_reader"
+}

package/mcp-configs/ai-platform/paperdebugger.json

@@ -0,0 +1,21 @@
+{
+  "id": "paperdebugger",
+  "name": "PaperDebugger MCP",
+  "description": "Multi-agent system for in-editor academic writing",
+  "category": "ai-platform",
+  "install": {
+    "runtime": "python",
+    "package": "paperdebugger",
+    "command": "pip install paperdebugger"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "review",
+    "edit",
+    "cite"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/paperdebugger"
+}

package/mcp-configs/browser/exa-mcp.json

@@ -0,0 +1,20 @@
+{
+  "id": "exa-mcp",
+  "name": "Exa AI Search MCP",
+  "description": "Exa semantic web search for research",
+  "category": "browser",
+  "install": {
+    "runtime": "node",
+    "package": "exa-mcp-server",
+    "command": "npm install -g exa-mcp-server"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "find_similar"
+  ],
+  "verified": false,
+  "source": "https://github.com/exa-labs/exa-mcp-server"
+}

package/mcp-configs/browser/mcp-searxng.json

@@ -0,0 +1,21 @@
+{
+  "id": "mcp-searxng",
+  "name": "SearXNG MCP",
+  "description": "SearXNG privacy-focused metasearch engine",
+  "category": "browser",
+  "install": {
+    "runtime": "node",
+    "package": "mcp-searxng",
+    "command": "npm install -g mcp-searxng"
+  },
+  "config": {
+    "env": {
+      "SEARXNG_URL": "http://localhost:8888"
+    }
+  },
+  "tools": [
+    "search"
+  ],
+  "verified": false,
+  "source": "https://github.com/ihor/mcp-searxng"
+}

package/mcp-configs/browser/mcp-webresearch.json

@@ -0,0 +1,20 @@
+{
+  "id": "mcp-webresearch",
+  "name": "Web Research MCP",
+  "description": "Google search and deep web research",
+  "category": "browser",
+  "install": {
+    "runtime": "node",
+    "package": "mcp-webresearch",
+    "command": "npm install -g mcp-webresearch"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "scrape"
+  ],
+  "verified": false,
+  "source": "https://github.com/nicosantos-mcp/mcp-webresearch"
+}

package/mcp-configs/cloud-docs/confluence-mcp.json

@@ -0,0 +1,37 @@
+{
+  "id": "confluence-mcp",
+  "name": "Confluence MCP",
+  "description": "Atlassian Confluence Cloud integration — search, read, and manage wiki pages and spaces for team-based research documentation.",
+  "category": "cloud-docs",
+  "install": {
+    "runtime": "node",
+    "package": "@anthropic/mcp-server-atlassian-confluence",
+    "command": "npm install @anthropic/mcp-server-atlassian-confluence"
+  },
+  "config": {
+    "env": {
+      "CONFLUENCE_URL": {
+        "description": "Confluence Cloud instance URL (e.g. https://yoursite.atlassian.net)",
+        "required": true
+      },
+      "CONFLUENCE_USERNAME": {
+        "description": "Atlassian account email address",
+        "required": true
+      },
+      "CONFLUENCE_API_TOKEN": {
+        "description": "Atlassian API token (generate at id.atlassian.com)",
+        "required": true
+      }
+    }
+  },
+  "tools": [
+    "search_content",
+    "get_page",
+    "create_page",
+    "update_page",
+    "list_spaces",
+    "get_space"
+  ],
+  "verified": false,
+  "source": "https://github.com/aashari/mcp-server-atlassian-confluence"
+}

package/mcp-configs/cloud-docs/google-drive-mcp.json

@@ -0,0 +1,35 @@
+{
+  "id": "google-drive-mcp",
+  "name": "Google Drive MCP",
+  "description": "Google Drive document access for AI — search, read, and list files across Google Docs, Sheets, Slides, and PDFs stored in Drive.",
+  "category": "cloud-docs",
+  "install": {
+    "runtime": "node",
+    "package": "@anthropic/mcp-server-google-drive",
+    "command": "npm install @anthropic/mcp-server-google-drive"
+  },
+  "config": {
+    "env": {
+      "GOOGLE_CLIENT_ID": {
+        "description": "Google OAuth 2.0 client ID",
+        "required": true
+      },
+      "GOOGLE_CLIENT_SECRET": {
+        "description": "Google OAuth 2.0 client secret",
+        "required": true
+      },
+      "GOOGLE_REFRESH_TOKEN": {
+        "description": "Google OAuth 2.0 refresh token",
+        "required": true
+      }
+    }
+  },
+  "tools": [
+    "search_files",
+    "read_file",
+    "list_files",
+    "get_file_metadata"
+  ],
+  "verified": false,
+  "source": "https://github.com/anthropics/mcp-server-google-drive"
+}

package/mcp-configs/cloud-docs/notion-mcp.json

@@ -0,0 +1,29 @@
+{
+  "id": "notion-mcp",
+  "name": "Notion MCP",
+  "description": "Notion integration for AI assistants — search, read, create, and update Notion pages, databases, and blocks directly from your research workflow.",
+  "category": "cloud-docs",
+  "install": {
+    "runtime": "node",
+    "package": "notion-mcp",
+    "command": "npm install notion-mcp"
+  },
+  "config": {
+    "env": {
+      "NOTION_TOKEN": {
+        "description": "Notion internal integration token (starts with ntn_)",
+        "required": true
+      }
+    }
+  },
+  "tools": [
+    "search_pages",
+    "read_page",
+    "create_page",
+    "update_page",
+    "query_database",
+    "list_databases"
+  ],
+  "verified": false,
+  "source": "https://github.com/Badhansen/notion-mcp"
+}

package/mcp-configs/communication/discord-mcp.json

@@ -0,0 +1,29 @@
+{
+  "id": "discord-mcp",
+  "name": "Discord MCP",
+  "description": "Discord server integration for research teams — send messages, read channels, manage threads, and interact with server members.",
+  "category": "communication",
+  "install": {
+    "runtime": "node",
+    "package": "mcp-discord",
+    "command": "npm install mcp-discord"
+  },
+  "config": {
+    "env": {
+      "DISCORD_BOT_TOKEN": {
+        "description": "Discord bot token from the Developer Portal",
+        "required": true
+      }
+    }
+  },
+  "tools": [
+    "send_message",
+    "read_messages",
+    "list_channels",
+    "list_guilds",
+    "create_thread",
+    "add_reaction"
+  ],
+  "verified": false,
+  "source": "https://github.com/v-3/mcp-discord"
+}

package/mcp-configs/communication/discourse-mcp.json

@@ -0,0 +1,21 @@
+{
+  "id": "discourse-mcp",
+  "name": "Discourse Forum MCP",
+  "description": "Official Discourse forum integration for academic communities",
+  "category": "communication",
+  "install": {
+    "runtime": "node",
+    "package": "discourse-mcp",
+    "command": "npm install -g discourse-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "search",
+    "get_topic",
+    "create_post"
+  ],
+  "verified": false,
+  "source": "https://github.com/discourse/discourse-mcp"
+}

package/mcp-configs/communication/slack-mcp.json

@@ -0,0 +1,29 @@
+{
+  "id": "slack-mcp",
+  "name": "Slack MCP",
+  "description": "Slack workspace integration — send messages, search conversations, list channels, and manage threads for research team communication.",
+  "category": "communication",
+  "install": {
+    "runtime": "node",
+    "package": "@anthropic/mcp-server-slack",
+    "command": "npm install @anthropic/mcp-server-slack"
+  },
+  "config": {
+    "env": {
+      "SLACK_BOT_TOKEN": {
+        "description": "Slack Bot User OAuth token (starts with xoxb-)",
+        "required": true
+      }
+    }
+  },
+  "tools": [
+    "send_message",
+    "search_messages",
+    "list_channels",
+    "read_channel_history",
+    "reply_to_thread",
+    "list_users"
+  ],
+  "verified": false,
+  "source": "https://github.com/anthropics/mcp-server-slack"
+}

package/mcp-configs/communication/telegram-mcp.json

@@ -0,0 +1,28 @@
+{
+  "id": "telegram-mcp",
+  "name": "Telegram MCP",
+  "description": "Telegram bot integration — send and receive messages, manage groups, and share files through Telegram for research collaboration.",
+  "category": "communication",
+  "install": {
+    "runtime": "node",
+    "package": "mcp-telegram",
+    "command": "npm install mcp-telegram"
+  },
+  "config": {
+    "env": {
+      "TELEGRAM_BOT_TOKEN": {
+        "description": "Telegram bot token from @BotFather",
+        "required": true
+      }
+    }
+  },
+  "tools": [
+    "send_message",
+    "read_updates",
+    "send_document",
+    "get_chat_info",
+    "list_chat_members"
+  ],
+  "verified": false,
+  "source": "https://github.com/nicekid1/mcp-telegram"
+}

package/mcp-configs/data-platform/automl-stat-mcp.json

@@ -0,0 +1,21 @@
+{
+  "id": "automl-stat-mcp",
+  "name": "AutoML Stats MCP",
+  "description": "AI-powered statistical analysis and AutoML platform",
+  "category": "data-platform",
+  "install": {
+    "runtime": "python",
+    "package": "automl-stat-mcp",
+    "command": "pip install automl-stat-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "analyze",
+    "train_model",
+    "predict"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/automl-stat-mcp"
+}

package/mcp-configs/data-platform/jefferson-stats-mcp.json

@@ -0,0 +1,22 @@
+{
+  "id": "jefferson-stats-mcp",
+  "name": "Jefferson Stats MCP",
+  "description": "40+ statistical analysis tools: hypothesis testing, regression",
+  "category": "data-platform",
+  "install": {
+    "runtime": "python",
+    "package": "jefferson-stats-mcp",
+    "command": "pip install jefferson-stats-mcp"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "t_test",
+    "anova",
+    "regression",
+    "chi_square"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/JeffersonStatsMCP"
+}

package/mcp-configs/data-platform/mcp-excel-server.json

@@ -0,0 +1,21 @@
+{
+  "id": "mcp-excel-server",
+  "name": "Excel MCP Server",
+  "description": "Natural language interaction with Excel files",
+  "category": "data-platform",
+  "install": {
+    "runtime": "node",
+    "package": "mcp-excel-server",
+    "command": "npm install -g mcp-excel-server"
+  },
+  "config": {
+    "env": {}
+  },
+  "tools": [
+    "read_sheet",
+    "query",
+    "write"
+  ],
+  "verified": false,
+  "source": "https://github.com/jjohare/mcp-excel-server"
+}