Graph size restrictions to what vg viz can visualise?
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19 months ago
LilithElina ▴ 10

Hi!

I like the way vg viz visualises the variant graph, but it seems I arrived at a point where it's not working anymore... I have a grpah constructed with seqwish from five whole bacterial genomes. Converting to VG format and creating an XG index worked just fine, but the SVG created by vg viz is empty. Is tehre a limit to what this tool can do, or is it a different problem somehow?

Sarah

vg • 363 views
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Sorry no idea. I've read vg viz can produce blank files if the paths are large. It's been suggested to use bandage instead. I think you should post an issue on github about it.

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Thank you! That was exactly what I was thinking, I just couldn't find any reference to it. If you've read somewhere that vg viz can produce blank files for large paths I have my answer.