Visualise the network based on an IDER-based similarity matrix. The vertexes are initial clusters, and the edge width denotes the similarity between two initial clusters.
plotNetwork(
seu,
ider,
batch.var = "Batch",
colour.by = NULL,
weight.factor = 6.5,
col.vector = NULL,
vertex.size = 1
)An igraph object
Seurat S4 object after the step of getIDER, containing
initial_cluster and Batch in its meta.data. Required.
A list. Output of `getIDER`. Required.
Character. Metadata colname containing batch information.
(Default: Batch)
Character. It should be one of the colnames of Seurat
object meta.data.It is used to colour the vertex of the network graph.
(Default: NULL)
Numerical. Adjust the thickness of the edges. (Default: 6.5)
A vector of Hex colour codes. If no value is given (default), a vector of 74 colours will be used.
Numerical. Adjsut the size of vertexes. (Default: 1)
getIDEr