What is the best tool to do a dot-plot alignment of two chromosomes?

Question

[pavelasquezv]

Hi all,

What is the best tool to do a dot-plot alignment of two chromosomes? I would be happy if you gave me some tips.

Many thanks,

All the best Alex

[pavelasquezv]

Many thanks!

Answer 1

[GenoMax]

https://mummer4.github.io/tutorial/tutorial.html

Answer 2

[lieven.sterck]

personally I also like:

D-Genies : http://dgenies.toulouse.inra.fr/

minidot: https://github.com/thackl/minidot