Question: Detecting structural variants when comparing assembled genome and reference
0
gravatar for godeludanu
3.8 years ago by
godeludanu30
godeludanu30 wrote:

I have a bacterial genome which has been assembled de novo from nanopore reads. I wish to compare this with a reference to detect all structural variants (this is an exploratory study, we do not currently have specific variations in mind).

Is there a single pipeline / tool to achieve what I am looking for?

genome • 1.3k views
ADD COMMENTlink modified 2.1 years ago by Biostar ♦♦ 20 • written 3.8 years ago by godeludanu30
0
gravatar for skbrimer
3.8 years ago by
skbrimer610
United States
skbrimer610 wrote:

You might try Sybil http://sybil.sourceforge.net/ I have not used it without someone holding my hand in a training seesion, but it had a really cool synteny gradient view that would should rearrangements pretty easily.

ADD COMMENTlink written 3.8 years ago by skbrimer610
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