Skip to content

/ vegan

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

Jump to bottom

adding a square root transformation #243

Closed
sydneyg opened this issue Jul 12, 2017 · 4 comments
Closed

adding a square root transformation #243

sydneyg opened this issue Jul 12, 2017 · 4 comments
Labels
feature-request

Comments

@sydneyg
Copy link

@sydneyg sydneyg commented Jul 12, 2017 •
edited

Hi @Microbiology can you please add a capability to do a square root transformation of the median/mean of the subsampled OTU tables prior to making the Bray-Curtis distance Matrix?

Thanks for this function! It looks awesome! This is for the avgdist.Rd function
@gavinsimpson gavinsimpson mentioned this issue Jul 12, 2017
Closed
@jarioksa
Copy link
Contributor

@jarioksa jarioksa commented Jul 13, 2017

The same comment as for issue #242: the avgdist function does not find median/mean of subsampled OTU tables, but mean of dissimilarities.
@sydneyg
Copy link
Author

@sydneyg sydneyg commented Jul 13, 2017

Thank you Jari, that is correct. I want to find the median of the dissimilarity matrices rather than the mean of them.
@Microbiology Microbiology mentioned this issue Jul 29, 2017
Merged
@Microbiology
Copy link
Contributor

@Microbiology Microbiology commented Jul 29, 2017

I added this functionality and included it in a pull request.
@jarioksa
Copy link
Contributor

@jarioksa jarioksa commented Aug 7, 2017

Closed with PR #244
@jarioksa jarioksa closed this Aug 7, 2017
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
feature-request
Projects
None yet
Milestone
No milestone
Linked pull requests

Successfully merging a pull request may close this issue.

None yet
3 participants
@jarioksa @sydneyg @Microbiology
You can’t perform that action at this time.