文献检索工具 - 语义搜索PubMed、arXiv、bioRxiv、medRxiv科学文献数据库

literature-search by yorkeccak/scientific-skills

244 周安装量

30 GitHub Stars

GitHub

安装命令

npx skills add https://github.com/yorkeccak/scientific-skills --skill literature-search

科研工具搜索自然语言处理

🇨🇳中文介绍

文献检索

使用 Valyu 语义搜索 API 的自然语言查询，同时搜索所有主要的科学文献数据库（PubMed、arXiv、bioRxiv、medRxiv）。

此技能为何强大

无需解析 API 参数：直接传递自然语言查询 - 无需构建复杂的搜索参数
语义搜索：理解查询的含义，而不仅仅是关键词匹配
全文访问：返回完整的文章内容，而不仅仅是摘要
图片链接：包含论文中的图表和图像
全面覆盖：同时搜索 PubMed、arXiv、bioRxiv 和 medRxiv
统一结果：在单个查询中获取所有来源的结果

要求

Node.js 18+（使用内置的 fetch）
来自 https://platform.valyu.ai 的 Valyu API 密钥（提供 10 美元免费额度）

重要：脚本路径解析

本文档中的 scripts/search 命令是相对于此技能的安装目录的。

在运行任何命令之前，请使用以下命令定位脚本：

LITERATURE_SCRIPT=$(find ~/.claude/plugins/cache -name "search" -path "*/literature-search/*/scripts/*" -type f 2>/dev/null | head -1)

然后对所有命令使用完整路径：

$LITERATURE_SCRIPT "CRISPR gene editing advances" 15

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API 密钥设置流程

当您运行搜索并收到 "setup_required": true 时，请遵循此流程：

向用户询问其 API 密钥： "要搜索科学文献，我需要您的 Valyu API 密钥。请在 https://platform.valyu.ai 免费获取（10 美元额度）"
一旦用户提供密钥，请运行：
```
scripts/search setup <api-key>
```
重试原始搜索。

何时使用此技能

跨所有领域的全面文献综述
查找某个主题的所有相关研究
跨领域的科学发现
结合生物医学、物理学和预印本文献
跨学科的新兴研究

{
  "success": true,
  "type": "literature_search",
  "query": "CRISPR gene editing advances",
  "result_count": 15,
  "results": [
    {
      "title": "Article Title",
      "url": "https://...",
      "content": "Full article text with figures...",
      "source": "pubmed|arxiv|biorxiv|medrxiv",
      "relevance_score": 0.95,
      "images": ["https://example.com/figure1.jpg"]
    }
  ],
  "cost": 0.025
}

# 获取文章标题
scripts/search "query" 20 | jq -r '.results[].title'

# 获取 URL
scripts/search "query" 20 | jq -r '.results[].url'

# 提取完整内容
scripts/search "query" 20 | jq -r '.results[].content'

# 按来源筛选
scripts/search "query" 20 | jq -r '.results[] | select(.source == "arxiv") | .title'

# 在所有来源中搜索以进行彻底审查
scripts/search "mechanisms of cellular senescence" 100

# 查找跨越多个领域的论文
scripts/search "quantum computing applications in drug discovery" 50

# 获取最新的预印本和出版物
scripts/search "foundation models for protein folding" 30

# 全面搜索生物医学文献
scripts/search "immunotherapy checkpoint inhibitors resistance" 40

所有命令都返回带有 success 字段的 JSON：

{
  "success": false,
  "error": "Error message"
}

0 - 成功
1 - 错误（检查 JSON 获取详细信息）

基础 URL：https://api.valyu.ai/v1
端点：/search
身份验证：X-API-Key 请求头

scripts/
├── search          # Bash 包装器
└── search.mjs      # Node.js CLI

使用 Node.js 内置的 fetch() 直接进行 API 调用，零外部依赖。

添加到您的项目

如果您正在构建一个 AI 项目，并希望将文献检索直接集成到您的应用程序中，请使用 Valyu SDK：

from valyu import Valyu

client = Valyu(api_key="your-api-key")

response = client.search(
    query="your search query here",
    included_sources=["valyu/valyu-pubmed", "valyu/valyu-arxiv", "valyu/valyu-biorxiv", "valyu/valyu-medrxiv"],
    max_results=20
)

for result in response["results"]:
    print(f"Title: {result['title']}")
    print(f"URL: {result['url']}")
    print(f"Content: {result['content'][:500]}...")

import { Valyu } from "valyu-js";

const client = new Valyu("your-api-key");

const response = await client.search({
  query: "your search query here",
  includedSources: ["valyu/valyu-pubmed", "valyu/valyu-arxiv", "valyu/valyu-biorxiv", "valyu/valyu-medrxiv"],
  maxResults: 20
});

response.results.forEach((result) => {
  console.log(`Title: ${result.title}`);
  console.log(`URL: ${result.url}`);
  console.log(`Content: ${result.content.substring(0, 500)}...`);
});

有关完整的集成示例和 SDK 参考，请参阅 Valyu 文档。

🇺🇸English

Literature Search

Search across all major scientific literature databases (PubMed, arXiv, bioRxiv, medRxiv) simultaneously using natural language queries powered by Valyu's semantic search API.

Why This Skill is Powerful

No API Parameter Parsing : Just pass natural language queries directly - no need to construct complex search parameters
Semantic Search : Understands the meaning of your query, not just keyword matching
Full-Text Access : Returns complete article content, not just abstracts
Image Links : Includes figures and images from papers
Comprehensive Coverage : Search across PubMed, arXiv, bioRxiv, and medRxiv simultaneously
Unified Results : Get results from all sources in a single query

Requirements

Node.js 18+ (uses built-in fetch)
Valyu API key from https://platform.valyu.ai ($10 free credits)

CRITICAL: Script Path Resolution

The scripts/search commands in this documentation are relative to this skill's installation directory.

Before running any command, locate the script using:

LITERATURE_SCRIPT=$(find ~/.claude/plugins/cache -name "search" -path "*/literature-search/*/scripts/*" -type f 2>/dev/null | head -1)

Then use the full path for all commands:

$LITERATURE_SCRIPT "CRISPR gene editing advances" 15

API Key Setup Flow

When you run a search and receive "setup_required": true, follow this flow:

Ask the user for their API key: "To search scientific literature, I need your Valyu API key. Get one free ($10 credits) at https://platform.valyu.ai"
Once the user provides the key, run:
```
scripts/search setup <api-key>
```
Retry the original search.

When to Use This Skill

Comprehensive literature reviews across all domains
Finding all relevant research on a topic
Cross-domain scientific discovery
Combining biomedical, physics, and preprint literature
Emerging research across disciplines

Output Format

{
  "success": true,
  "type": "literature_search",
  "query": "CRISPR gene editing advances",
  "result_count": 15,
  "results": [
    {
      "title": "Article Title",
      "url": "https://...",
      "content": "Full article text with figures...",
      "source": "pubmed|arxiv|biorxiv|medrxiv",
      "relevance_score": 0.95,
      "images": ["https://example.com/figure1.jpg"]
    }
  ],
  "cost": 0.025
}

Processing Results

With jq

# Get article titles
scripts/search "query" 20 | jq -r '.results[].title'

# Get URLs
scripts/search "query" 20 | jq -r '.results[].url'

# Extract full content
scripts/search "query" 20 | jq -r '.results[].content'

# Filter by source
scripts/search "query" 20 | jq -r '.results[] | select(.source == "arxiv") | .title'

Common Use Cases

Comprehensive Literature Review

# Search across all sources for thorough review
scripts/search "mechanisms of cellular senescence" 100

Cross-Disciplinary Research

# Find papers spanning multiple fields
scripts/search "quantum computing applications in drug discovery" 50

Recent Developments

# Get latest preprints and publications
scripts/search "foundation models for protein folding" 30

Medical Research

# Search biomedical literature comprehensively
scripts/search "immunotherapy checkpoint inhibitors resistance" 40

Error Handling

All commands return JSON with success field:

{
  "success": false,
  "error": "Error message"
}

Exit codes:

0 - Success
1 - Error (check JSON for details)

API Endpoint

Base URL: https://api.valyu.ai/v1
Endpoint: /search
Authentication: X-API-Key header

Architecture

scripts/
├── search          # Bash wrapper
└── search.mjs      # Node.js CLI

Direct API calls using Node.js built-in fetch(), zero external dependencies.

Adding to Your Project

If you're building an AI project and want to integrate Literature Search directly into your application, use the Valyu SDK:

Python Integration

from valyu import Valyu

client = Valyu(api_key="your-api-key")

response = client.search(
    query="your search query here",
    included_sources=["valyu/valyu-pubmed", "valyu/valyu-arxiv", "valyu/valyu-biorxiv", "valyu/valyu-medrxiv"],
    max_results=20
)

for result in response["results"]:
    print(f"Title: {result['title']}")
    print(f"URL: {result['url']}")
    print(f"Content: {result['content'][:500]}...")

TypeScript Integration

import { Valyu } from "valyu-js";

const client = new Valyu("your-api-key");

const response = await client.search({
  query: "your search query here",
  includedSources: ["valyu/valyu-pubmed", "valyu/valyu-arxiv", "valyu/valyu-biorxiv", "valyu/valyu-medrxiv"],
  maxResults: 20
});

response.results.forEach((result) => {
  console.log(`Title: ${result.title}`);
  console.log(`URL: ${result.url}`);
  console.log(`Content: ${result.content.substring(0, 500)}...`);
});

See the Valyu docs for full integration examples and SDK reference.

Weekly Installs

205

Repository

yorkeccak/scien…c-skills

GitHub Stars

First Seen

Jan 21, 2026

Security Audits

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Installed on

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1,500 周安装

文献检索工具 - 语义搜索PubMed、arXiv、bioRxiv、medRxiv科学文献数据库

🇨🇳中文介绍

文献检索

此技能为何强大

要求

重要：脚本路径解析

相关 Skills

API 密钥设置流程

何时使用此技能

输出格式

处理结果

使用 jq

常见用例

全面文献综述

跨学科研究

最新进展

医学研究

错误处理

API 端点

架构