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

Enumerate authors missing nodes and edges in neurotree #7

Open
stripathy opened this issue Feb 12, 2016 · 1 comment
Open

Enumerate authors missing nodes and edges in neurotree #7

stripathy opened this issue Feb 12, 2016 · 1 comment
Assignees

Comments

@stripathy
Copy link
Contributor

Which neuroelectro authors are missing neurotree nodes?
Which neuroelectro authors have neurotree nodes missing appropropriate edges?

@stripathy stripathy self-assigned this Feb 12, 2016
stripathy added a commit that referenced this issue Feb 14, 2016
@stripathy
Copy link
Contributor Author

@svdavid , I've implemented a first version of this analysis, focusing on only authors who have published a paper on CA1 Pyramidal cells. Results in this csv: https://github.com/neuroelectro/neuroelectro_neurotree/blob/master/ca1_pyr_auths.csv

Unique last authors publishing on CA1 pyramidal cells in NeuroElectro: 68
with NeuroTree nodes: 44
with paths to other CA1 author nodes: 36-38

Generalizing from this, we can expect that about half of the NeuroElectro authors will have useful lineage data in NeuroTree in its current state.

Comments:

  1. I'm relying on neurotree's function to return an author node given a pmid as input.
  2. The "Connectedness" measure is the ratio of how often I can find a path between an author and the other CA1 authors.
  3. It's simple enough to implement this for all authors, it'll just take a while since I need to query the path length for each author-pair.

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