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jbrowse-plugin-graphgenomeviewer\n\nWIP for displaying graph genome as a view in JBrowse 2\n\n## Screenshot\n\n![](img/1.png)\n\n## Concept\n\nThe code adds:\n\n- a simple file selector for the user to open .gfa files to display alognside\n  the genome browser (these are meant to be locus-specific smallish GFA, not\n  full assembly graphs)\n- alternatively, can configure a \"GFA server\" which will use the `vg chunk`\n  command to extract the region into a web based bandage-like graph genome\n  viewer https://github.com/cmdcolin/graphgenomeviewer\n\n## Thanks\n\nTo the StableGenomics team for their PAG workshop helping explain some vg\ntoolkit commands and concepts https://github.com/StableGenomics/PangPAG\n\n## TODOs\n\nShortlist of TODOs\n\n- Easier navigation between the linear genome view and graph genome panel\n- Ability to launch a synteny-style view from the graph\n- Ability to use decompose graph into VCF track\n- Ability to show paths/walks\n- Debug issue where vg chunk GFA output not loadable in bandage\n- Improve scalability\n- Bi-directional mouseover from genome to graph and back\n- Less chunk-y-ness from the vg chunk graph (?)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcmdcolin%2Fjbrowse-plugin-graphgenomeviewer","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fcmdcolin%2Fjbrowse-plugin-graphgenomeviewer","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcmdcolin%2Fjbrowse-plugin-graphgenomeviewer/lists"}