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

Disentangling unsuccessful and only getting one (44kbp) scaffold #368

Open
mvanda3 opened this issue Feb 6, 2025 · 0 comments
Open

Disentangling unsuccessful and only getting one (44kbp) scaffold #368

mvanda3 opened this issue Feb 6, 2025 · 0 comments

Comments

@mvanda3
Copy link

mvanda3 commented Feb 6, 2025

get_org.log.txt

Image

Hey, I would greatly appreciate any help I can get with my problem. I am trying to assemble a chloroplast genome and when I run GetOrganelle, there seems to be an issue with disentangling step, but also the graph that I receive is a singular scaffold that is very short. I have tried changing kmer size, w, R and I still get the same problem. Is it a matter of my read quality, and is there a limit to read length that is preventing the assembly of a circular plastome?

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