Description Usage Arguments Value
Creates a Scaffold map
1 2 3 4 5 6 7 8 9 10 11 | get_scaffold_map(
tab.clustered,
col.names,
tab.landmarks,
G.landmarks = NULL,
ew.influence = ceiling(length(col.names)/3),
min.similarity = 0.5,
inter.cluster.col.names = col.names,
inter.cluster.weight.factor = 0.7,
overlap.method = "repel"
)
|
tab.clustered |
A |
col.names |
A character vector of column names to be used for the analysis (these must correspond to the names
of the columns in |
tab.landmarks |
A |
G.landmarks |
An |
min.similarity |
The minimum similarity value to be used as threshold to filter out edges. See the documentation
for |
inter.cluster.col.names |
A vector of column names to be used to calculate inter-cluster edges If this
is |
inter.cluster.weight.factor |
The weight of the inter-cluster edges will be multplied by this number before calculating the ForceAtlas2 layout. This can be used to fine tune the relative contribution of cluster-to-landmark vs cluster-to-cluster edges in the laytout |
overlap.method |
The method to be used for resolving nodes overlap in the final layout. See the documentation for
|
Returns a list with the following components
G.landmarks
: an igraph
object representing the identity and position of landmark nodes, suitable
for succesive invocations of this function
G.complete
: an igraph
object representing the Scaffold map
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