Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Could not obtain circular genome!! #154

Open
sneupane01 opened this issue Nov 6, 2019 · 0 comments
Open

Could not obtain circular genome!! #154

sneupane01 opened this issue Nov 6, 2019 · 0 comments

Comments

@sneupane01
Copy link

Hi,
I performed canu assembly and trying to circularize the 1.54Mb contiguous with following one of the parameters:
circlator all --assembler canu --data_type pacbio-corrected --bwa_opts "-x ont2d" ---b2r_length_cutoff 30000 merge_min_id 85 --merge_breaklen 1000 1.54mbcontig.fa p.correctedReads.fasta.gz output_cir_85_1000

I tried different combinations but all of them are not working. Please suggest what parameters I can add to make it circular. Should I have to polish it before circularization?

Thank You

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant