Network inference resources
R implementation of CoNet
Thanks to Lisa Röttjers, there is now an R implementation of CoNet available on Github.
Network inference tools
Here is a list of network inference tools with a focus on
microbial network inference tools (no claim of completeness).
Network inference evaluation
Here you can find an article
evaluating different microbial network inference approaches, CoNet among them, on
synthetic data. A comment on the evaluation can be found here.
CoNet Cytoscape app channel article
Here you can find the CoNet Cytoscape app F1000 article,
which gives more background on the implementation and usage of the CoNet Cytoscape app.
Indirect edge removal
Here is a presentation on indirect edge removal that I gave at the Simon's Foundation Workshop
on Challenges in Microbiome Data Analysis.
Clickable networks
Here are clickable networks constructed with CoNet and visualized with Gephi's Sigma.js exporter:
- TARA Ocean plankton association network (click the TARA interactome tab)
- Foodmicrobionet