phsc.get.most.likely.transmission.chains.RBGLedmonds: Construct maximum probability transmission network
In olli0601/phyloscan:
View source: R/phyloscan.fun.private.R
phsc.get.most.likely.transmission.chains.RBGLedmonds R Documentation
Construct maximum probability transmission network
Description
This function reconstructs a maximum probility transmission
network from the scores associated with directed and undirected edges.
The algorithm starts by keeping the edge with highest score.
It then removes the competitor in the opposite direction, and any conflicting edges that would result in indegrees larger than one.
By construction, all removed edges have lower probability.
The algorithm proceeds until all edges have been processed.
Usage
phsc.get.most.likely.transmission.chains.RBGLedmonds(rtnn, verbose = 0)
Arguments
rtn
data.table with network scores for all individuals that could form a network. Must contain columns 'ID1','ID2','IDCLU','GROUP','TYPE','POSTERIOR_SCORE','KEFF'.
Value
new data.table with added columns LINK_12 LINK_21 (either 1 or 0), and MX_PROB_12 MX_PROB_21 (associated posterior probabilities)
olli0601/phyloscan documentation built on May 5, 2024, 5:25 a.m.
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View source: R/phyloscan.fun.private.R
| phsc.get.most.likely.transmission.chains.RBGLedmonds | R Documentation |
Construct maximum probability transmission network
Description
This function reconstructs a maximum probility transmission network from the scores associated with directed and undirected edges. The algorithm starts by keeping the edge with highest score. It then removes the competitor in the opposite direction, and any conflicting edges that would result in indegrees larger than one. By construction, all removed edges have lower probability. The algorithm proceeds until all edges have been processed.
Usage
phsc.get.most.likely.transmission.chains.RBGLedmonds(rtnn, verbose = 0)
Arguments
rtn |
data.table with network scores for all individuals that could form a network. Must contain columns 'ID1','ID2','IDCLU','GROUP','TYPE','POSTERIOR_SCORE','KEFF'. |
Value
new data.table with added columns LINK_12 LINK_21 (either 1 or 0), and MX_PROB_12 MX_PROB_21 (associated posterior probabilities)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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