translinks: Calculate tree distance
In bitrugs: Bayesian Inference of Transmission Routes Using Genome Sequences
Description
Usage
Arguments
Details
Examples
Description
Compute the number of transmission links separating two nodes in a transmission tree.
Usage
1
translinks(p1, p2, patID, psource)
Arguments
p1
Patient ID 1.
p2
Patient ID 2.
patID
Vector of patient IDs.
psource
Vector of transmission sources corresponding to patID.
Details
Returns the number of transmission links separating two patients in the transmission tree. If patients belong to unconnected transmission trees, -1 is returned. Directions of transmission links are disregarded.
Examples
1
2
3
4
5
data(hospitaldata)
# Patients 48 and 58 are 3 links apart
translinks(48,58,hospitaldata$epi[,1],hospitaldata$epi[,5])
# Patients 89 and 58 are in separate transmission chains
translinks(89,58,hospitaldata$epi[,1],hospitaldata$epi[,5])
bitrugs documentation built on May 2, 2019, 8:55 a.m.
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Description Usage Arguments Details Examples
Description
Compute the number of transmission links separating two nodes in a transmission tree.
Usage
1 | translinks(p1, p2, patID, psource)
|
Arguments
p1 |
Patient ID 1. |
p2 |
Patient ID 2. |
patID |
Vector of patient IDs. |
psource |
Vector of transmission sources corresponding to |
Details
Returns the number of transmission links separating two patients in the transmission tree. If patients belong to unconnected transmission trees, -1 is returned. Directions of transmission links are disregarded.
Examples
1 2 3 4 5 | data(hospitaldata)
# Patients 48 and 58 are 3 links apart
translinks(48,58,hospitaldata$epi[,1],hospitaldata$epi[,5])
# Patients 89 and 58 are in separate transmission chains
translinks(89,58,hospitaldata$epi[,1],hospitaldata$epi[,5])
|
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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