Question: Unicycler bacterial genome assembly result visualization
0
gravatar for hopeserepa
22 days 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 21 days ago • written 22 days ago by hopeserepa0
0
gravatar for Jennifer Hillman Jackson
22 days ago by
United States
Jennifer Hillman Jackson24k 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 22 days ago by Jennifer Hillman Jackson24k

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 21 days ago by hopeserepa0
0
gravatar for hopeserepa
21 days 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 21 days ago by hopeserepa0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 92 users visited in the last hour