Question: MUMmer aligments: How to visualize better the plots?
0
gravatar for caro-ca
6 weeks ago by
caro-ca0
caro-ca0 wrote:

Hi! I already aligned my assemblies from Nanopore long reads, but when I tried to look at the .png file from MUMmer is very difficult to visualize the contigs of the x and y axes. Do you have any recommendation on how to visualize the plots better? Thank you in advance!

mummerplots • 110 views
ADD COMMENTlink modified 25 days ago by joneill4x50 • written 6 weeks ago by caro-ca0

Can you show an example? If you're referring to the diagonals plot you might want to intersect it, for instance show one contig vs the other genome of several contigs, you will need to select lines from the out.delta file and change the fasta files

ADD REPLYlink written 25 days ago by Asaf6.5k
1
gravatar for joneill4x
25 days ago by
joneill4x50
Canada
joneill4x50 wrote:

Genome Ribbon

http://genomeribbon.com/

https://youtu.be/Ih4Wf2U10-4

D-GENIES usues minimap2 rather than MUMmer. I have found it extremely useful.

http://dgenies.toulouse.inra.fr/run

ADD COMMENTlink modified 25 days ago • written 25 days ago by joneill4x50
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