Question: Unicycler bacterial genome assembly result visualization
0
gravatar for hopeserepa
9 months ago by
hopeserepa0
hopeserepa0 wrote:

I have used Unicycler to assembly bacteriala genome, but I am unable to view the unicycler final assembly graph, please assist?

ADD COMMENTlink modified 9 months ago • written 9 months ago by hopeserepa0
0
gravatar for Jennifer Hillman Jackson
9 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

The graph cannot be directly viewed within Galaxy. Using Bandage with the Galaxy raw graph (text) dataset as an input is one visualization option.

Full details are covered in this Galaxy Blog post and the linked tutorial: https://galaxyproject.org/blog/2017-10-16-UnicyclerTutorial/

Thanks! Jen, Galaxy team

ADD COMMENTlink written 9 months ago by Jennifer Hillman Jackson25k

Thanks Jennifer,

I have managed to view the graph using Bandage.

I now have to calculate the genome coverage but the Unicycler stats does not indicate which/how many of the mapped reads were assembled. Hope I make sense, please assist?

ADD REPLYlink written 9 months ago by hopeserepa0
0
gravatar for hopeserepa
9 months ago by
hopeserepa0
hopeserepa0 wrote:

Thanks Jennifer,

I have managed to view the graph using Bandage.

I now have to calculate the genome coverage but the Unicycler stats does not indicate which/how many of the mapped reads were assembled. Hope I make sense, please assist?

ADD COMMENTlink written 9 months ago by hopeserepa0
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