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mummer4 / mummer

Mummer alignment tool
Artistic License 2.0
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FYI: dotplot-style visualizations in Python for nucmer output #144

Open ctb opened 3 years ago

ctb commented 3 years ago

hello, I just wanted to let you know about some stuff I've been doing to visualize nucmer output - stacked dotplots and other stuff. Code is here: https://github.com/ctb/2020-stacked-dot-plots

thanks for all your work on mummer, it's fantastic!

sunnycqcn commented 3 years ago

I am much appreciated that you let me know and for your excellent work. Best, Fuyou

On Sun, Nov 22, 2020 at 1:14 PM C. Titus Brown notifications@github.com wrote:

hello, I just wanted to let you know about some stuff I've been doing to visualize nucmer output - stacked dotplots and other stuff. Code is here: https://github.com/ctb/2020-stacked-dot-plots

thanks for all your work on mummer, it's fantastic!

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/mummer4/mummer/issues/144, or unsubscribe https://github.com/notifications/unsubscribe-auth/AF3JCKE26XUMLCD55PFOW43SRFPLHANCNFSM4T6VJ57A .

-- Fuyou Fu, Ph.D. Department of Botany and Plant Pathology Purdue University USA

alekseyzimin commented 3 years ago

Thank you for your work, looks very nice! May I add your code to a future release of mummer?

ctb commented 3 years ago

of course! It's under BSD and while I can't sign the copyright over to you (it's UC :( please feel free to (re)distribute as you find useful!

I've been refactoring it somewhat over in the charcoal project and while the core plotting code hasn't yet been cleaned up, I've split out the code for reading it in more nicely, and a few other things. Suggest taking a look there in the future - I'll update this issue as I clean up the code more. here's the current link: alignplot.py but I will merge it into the main branch soon.