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marbl / ModDotPlot

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Adding separate query and test sequences #6

Open nikhita-damaraju opened 1 year ago

nikhita-damaraju commented 1 year ago

Hi, I was wondering if there was a way to make the static plot for two separate sequences? As I understand it right now, it checks the identity of a sequence with itself.

tchrisboles commented 1 year ago

Same question as Nikhita above. Thanks.

tchrisboles commented 1 year ago

As in comparing pseudogenes or segdups on different chromosomes?

nikhita-damaraju commented 1 year ago

@tchrisboles , yes that could be one of the outcomes. I was thinking more along the lines of showing the alignment of query sequence to a reference sequence.

alexsweeten commented 1 year ago

Hi @nikhita-damaraju and @tchrisboles,

Sorry for the late response! I've added this functionality in the most recent update to ModDotPlot. To create an a vs. b style dotplot, add the --compare command line argument when creating static plots or using interactive mode.

tchrisboles commented 1 year ago

Great - will try it out soon. Thanks. Best regards,

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Hi @nikhita-damaraju https://github.com/nikhita-damaraju and @tchrisboles https://github.com/tchrisboles,

Sorry for the late response! I've added this functionality in the most recent update to ModDotPlot. To create an a vs. b style dotplot, add the --compare command line argument when creating static plots or using interactive mode.

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tchrisboles commented 9 months ago

Sorry for the delay. Just tried A vs B dotplot with --compare-only option. Works great. Thanks. Chris

tchrisboles commented 9 months ago

Actually, one other thing. What's the proper way to exit interactive mode?

alexsweeten commented 9 months ago

Running ctrl+C on the terminal ModDotPlot is being run on will exit interactive mode and kill the process.

Adding a proper exit button will make this cleaner. Will add this in the next version. Thanks and glad it's working well!