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

explore scaling of extension tree branch lengths relative to foundation tree #39

Open
gregcaporaso opened this issue May 6, 2015 · 0 comments

Comments

@gregcaporaso
Copy link
Contributor

One thing we could try here would be to add a multiplicative factor to the cli that gives users the ability to multiply branches in the extension tree by that value (though I realize that might be overly simplistic, and I'm open to other suggestions). This value would need to always be greater than zero, and a value of 1 would correspond to no scaling. For the paper, we can then test varying this parameter to determine if it affects downstream diversity metrics in a meaningful way (if the resulting UniFrac distance matrices are highly correlated by Mantel r, then it doesn't), and if so experiment with to optimize our detection of the small and large effect sizes. Thoughts?

@JTFouquier JTFouquier added this to the BeforeSubmission milestone May 7, 2015
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
Projects
None yet
Development

No branches or pull requests

2 participants