multi2dend: Translate multilevel segmentation into a dendrogram, with the...
In kharchenkolab/sccore: Core Utilities for Single-Cell RNA-Seq
multi2dend R Documentation
Translate multilevel segmentation into a dendrogram, with the lowest level of the dendrogram listing the cells
Description
Translate multilevel segmentation into a dendrogram, with the lowest level of the dendrogram listing the cells
Usage
multi2dend(cl, counts, deep = FALSE, dist = "cor")
Arguments
cl
igraph communities object, returned from igraph community detection functions
counts
dgCmatrix of counts
deep
boolean If TRUE, take (cl$memberships[1,]). Otherwise, uses as.integer(membership(cl)) (default=FALSE)
dist
Distance metric used (default='cor'). Eiether 'cor' for the correlation distance in log10 space, or 'JS' for the Jensen–Shannon distance metric (i.e. the square root of the Jensen–Shannon divergence)
Value
resulting dendrogram
kharchenkolab/sccore documentation built on Feb. 26, 2024, 12:41 a.m.
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| multi2dend | R Documentation |
Translate multilevel segmentation into a dendrogram, with the lowest level of the dendrogram listing the cells
Description
Translate multilevel segmentation into a dendrogram, with the lowest level of the dendrogram listing the cells
Usage
multi2dend(cl, counts, deep = FALSE, dist = "cor")
Arguments
cl |
igraph communities object, returned from igraph community detection functions |
counts |
dgCmatrix of counts |
deep |
boolean If TRUE, take (cl$memberships[1,]). Otherwise, uses as.integer(membership(cl)) (default=FALSE) |
dist |
Distance metric used (default='cor'). Eiether 'cor' for the correlation distance in log10 space, or 'JS' for the Jensen–Shannon distance metric (i.e. the square root of the Jensen–Shannon divergence) |
Value
resulting dendrogram
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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