clusterTimedTree: find clusters in timed tree
In JamesStimson/transcluster: Transmission clustering using SNPs and sample dates
Description
Usage
Arguments
Examples
Description
find clusters in timed tree
Usage
1
clusterTimedTree(timedTree, K_cutoff, beta, perc_cutoff, maxK = 25)
Arguments
timedTree
timed tree in newick format
beta
transmission rate
perc_cutoff
cut-off percentage
maxK
max number of transmissions considered
k_cutoff
number of transmissions in cutoff criterion
Examples
1
## Not run: clusterTimedTree(branchtree, 10, 2.2, 0.2)
JamesStimson/transcluster documentation built on May 24, 2020, 10:39 p.m.
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.
Description Usage Arguments Examples
Description
find clusters in timed tree
Usage
1 | clusterTimedTree(timedTree, K_cutoff, beta, perc_cutoff, maxK = 25)
|
Arguments
timedTree |
timed tree in newick format |
beta |
transmission rate |
perc_cutoff |
cut-off percentage |
maxK |
max number of transmissions considered |
k_cutoff |
number of transmissions in cutoff criterion |
Examples
1 | ## Not run: clusterTimedTree(branchtree, 10, 2.2, 0.2)
|
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.