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

I have used Unicycler to assembly bacteriala genome, but I am unable to view the unicycler final assembly graph, please assist?
graph unicycler visualization genome assembly • 526 views
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modified 10 months ago • written 10 months ago by hopeserepa • 0
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gravatar for Jennifer Hillman Jackson
10 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k 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 COMMENT • link written 10 months ago by Jennifer Hillman Jackson ♦ 25k

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 REPLY • link written 10 months ago by hopeserepa • 0
0
gravatar for hopeserepa
10 months ago by
hopeserepa • 0
hopeserepa • 0 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 COMMENT • link written 10 months ago by hopeserepa • 0
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