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

Implementation of an "insertion-only" mode #32

Open
leon8889 opened this issue Dec 5, 2016 · 1 comment
Open

Implementation of an "insertion-only" mode #32

leon8889 opened this issue Dec 5, 2016 · 1 comment

Comments

@leon8889
Copy link

leon8889 commented Dec 5, 2016

A friend of mine recommended me BreaKmer for identification of insertions. Now I recognized that BreaKmer is always search for all kinds of structural variants. Would it be possible to implement some kind of "insertion only" mode to speed everything up?

@ryanabo
Copy link
Collaborator

ryanabo commented Dec 7, 2017

The time-consuming process is in reconstructing the contigs and remapping them. You would not necessarily know which contigs contained insertions or other types of SVs until those steps are done. So, in the end the method would not significantly change.

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

2 participants