https://github.com/j-e-j-s/autograph-obsidian

Automatic knowledge graph generation for Obsidian.md
https://github.com/j-e-j-s/autograph-obsidian

information information-retrieval information-visualization knowledge-graph mining obsidian obsidian-community obsidian-md obsidian-vault scientific-publications

Last synced: 2 months ago
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Automatic knowledge graph generation for Obsidian.md

• Host: GitHub
• URL: https://github.com/j-e-j-s/autograph-obsidian
• Owner: J-E-J-S
• License: other
• Created: 2021-05-13T09:51:30.000Z (over 3 years ago)
• Default Branch: main
• Last Pushed: 2023-09-13T09:02:10.000Z (over 1 year ago)
• Last Synced: 2024-10-14T07:40:53.488Z (2 months ago)
• Topics: information, information-retrieval, information-visualization, knowledge-graph, mining, obsidian, obsidian-community, obsidian-md, obsidian-vault, scientific-publications
• Language: Python
• Homepage:
• Size: 88.6 MB
• Stars: 24
• Watchers: 1
• Forks: 2
• Open Issues: 1
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# AutoGraph-Obsidian: Automated Knowledge Graph Generation.   

## Introduction  

AutoGraph is a tool that enables rapid, automated knowledge graph generation. AutoGraph does this by mining scientific literature against a search query for keywords. From this data, an Obsidian vault is made where each mined keyword has its own markdown file containing: i) the name of the paper the keyword was scraped from and ii) links to other keywords from that paper. When two papers share a keyword, a link is established between those articles through that term. Over many papers, this allows a network of interactions between articles in a field to be visualized. The purpose of this tool is not only to establish graph-based summaries of topics but also to identify hidden links between divergent fields - largely inspired by the works of [Manfred Kochen](https://dblp.org/pid/31/4553.html).

## Prerequisites:  

* [Python](https://www.python.org/downloads/) >= 3.6  

* [Obsidian.md](https://obsidian.md/)

## Quickstart:

```

pip3 install autograph-obsidian

```

## Usage:  

```

Usage: autograph [OPTIONS] QUERY

  Arguments:

  QUERY The main search string.

Options:

  -l, --limit INTEGER  Number of papers to mine. Default = 500.

  -v, --version        Show version number and exit.

  --help               Show this message and exit.

```

e.g.

```

autograph 'Genetic Code Expansion' -l 100

```

## Case Study  

Generating the graph with autograph  

![](/assets/autograph.gif)

Viewing the graph with Obsidian.md

![](/assets/case_study.gif)

## Acknowledgements  

The mining of scientific literature is handled by the [pygetpapers](https://github.com/petermr/pygetpapers) package developed by [ContentMine](https://contentmine.github.io/).