https://github.com/kdm9/raugraf

https://github.com/kdm9/raugraf

Last synced: 11 days ago
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• Host: GitHub
• URL: https://github.com/kdm9/raugraf
• Owner: kdm9
• License: mpl-2.0
• Created: 2024-01-29T16:03:33.000Z (10 months ago)
• Default Branch: main
• Last Pushed: 2024-07-31T13:58:49.000Z (4 months ago)
• Last Synced: 2024-10-11T19:22:58.245Z (about 1 month ago)
• Language: Python
• Size: 29.3 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# Raugraf

Pangenomic diversity metrics. DOI: 10.5281/zenodo.13144148

# Install

```

pipx install raugraf

```

# Tools

## Local Complexity/Node Radius

```

raugraf local-complexity \

	--graph mygraph.gfa \        # GFA from PGGB (or at least passed thru smooothxg and odgi)

	--jumps 20 \                 # Traverse up to 20 nodes away from the focal node

	--node-bed out.bedGraph      # Bedgraph of local complexity per node for each path in the pangenome

```