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.

Sign up for GitHub

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

Jump to bottom

Should we increase the default length of the burn-in? #75

Open
ebrintn opened this issue Jun 15, 2023 · 2 comments
Open

Should we increase the default length of the burn-in? #75

ebrintn opened this issue Jun 15, 2023 · 2 comments
Assignees
@jasondk
Labels
question Further information is requested

Comments

@ebrintn
Copy link
Collaborator

ebrintn commented Jun 15, 2023

I am noticing there is a lot more dN than dS, even when mutation is weak. I think we need to increase the burn in from 1000 to at minimum 10 thousand generation. This should be ok because the software is faster now!
@ebrintn ebrintn added the question Further information is requested label Jun 15, 2023
@ebrintn
Copy link
Collaborator Author

ebrintn commented Mar 21, 2024

@jasondk I think this may be worthwhile - I've managed to speed up a lot of things and am noticing that populations tend to be deversifying until about generation 10000

@ebrintn ebrintn assigned ebrintn and jasondk and unassigned ebrintn Aug 7, 2024
@ebrintn
Copy link
Collaborator Author

ebrintn commented Aug 7, 2024

I'm not sure if we need to expand the burn in because the dn/ds values of neutral evolution are not 1 for p1. @jasondk what are your thoughts?

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@jasondk jasondk

Labels
question Further information is requested
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@jasondk @ebrintn