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ryanlayer / samplot

Plot structural variant signals from many BAMs and CRAMs
MIT License
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Disable long SV truncation #162

Closed cathaloruaidh closed 2 years ago

cathaloruaidh commented 2 years ago

Hi,

Love the tool! I noticed that for long SVs, the display is often truncated in the middle, for example:

NA12878_3q29_DEL_original

Is there a way to disable this behaviour, or even change the threshold at which truncation occurs? I appreciate that this probably will make the plot hard to view, depending on the size/threshold.

Thanks! Cathal

jbelyeu commented 2 years ago

Hey Cathal, glad you're liking it. Check out the --zoom flag - what you're seeing is a figure that zooms in to show the flanks of the region of interest but doesn't include the whole region because it takes a long time to plot (and as you pointed out, can make viewing more difficult). If you increase the zoom arg from default of 500000 to say 2000000, it won't zoom in for this sv.

cathaloruaidh commented 2 years ago

Hey Jon, that work perfectly, thank you! Apologies for not reading the help more thoroughly!