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JustinChu / JupiterPlot

A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.
GNU General Public License v3.0
68 stars 11 forks source link

Request: Option to always show all contigs #42

Closed alexweisberg closed 6 months ago

alexweisberg commented 11 months ago

Thanks for writing this tool, it works very well. I was wondering if it would be possible to add an option such that all contigs (query and ref) are shown, even if they don't map. I know the ng option can be increased, but this can be kind of fiddly to find the right value. It would be nice if there were a flag to set that automatically just shows everything, even if it would be clunky looking. Thanks!

JustinChu commented 6 months ago

I've added that if you set ng=0 all contigs will be included, I wouldn't recommend it for assemblies with many small fragments but the option is now there if someone wants it. m=0 will also need to be used to get the functionality for everything.