Question: How to circularize genome assemblies
0
gravatar for Ric
12 months ago by
Ric190
Australia
Ric190 wrote:

Hi, are there any tools which can circularize genome PacBio assemblies/reads? I have an assembly created by miniasm and Racon.

Thank you in advance.

assembly genome • 996 views
ADD COMMENTlink modified 11 months ago by Kzra10 • written 12 months ago by Ric190
1
gravatar for Philipp Bayer
12 months ago by
Philipp Bayer6.0k
Australia/Perth/UWA
Philipp Bayer6.0k wrote:

Yep! It's called circlator

https://github.com/sanger-pathogens/circlator/wiki

ADD COMMENTlink written 12 months ago by Philipp Bayer6.0k
0
gravatar for Kzra
11 months ago by
Kzra10
University of British Columbia
Kzra10 wrote:

Circlator is a great tool. I've also written a program that will circularise a genome simply by looking for most probable repeat sites on either end of the assembly. Unlike Circlator it only requires Python 3 to run, however in cases where the contig hasn't circularised due to a missing region it will not work.

https://github.com/Kzra/Simple-Circularise

ADD COMMENTlink written 11 months ago by Kzra10
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