Graph Layout and Visualization for GFA Files with FM3 algorithm

Introduction

Enter a GFA file, then specify variants, it will locate it and achieve cool visualization.

This is very practical and efficient for displaying variation or website presentation.

DEMO

Installation

git clone https://github.com/JianYang-Lab/fm3-gfa.git
cd fm3-gfa
cargo build --release

Usage

1. generate all json files

./target/release/fm3-gfa generate --gfa test.gfa --vcf test.1000.vcf.gz > test.all.json.tsv

2. Start a web server

./target/release/fm3-gfa serve --gfa test.gfa --vcf test.1000.vcf.gz --port 8888
Server running at http://localhost:8888

Enjoy the visualization at http://localhost:8888

Maintainer

Wenjie Wei: Developement

Yifei Wang: Concept and test data