R/minimum_spanning_tree.R
In reggenlab/UniPath: UniPath provides robust statistical methods to represent every single cell using pathway and gene-set enrichment scores. It can be used with both single cell RNA-seq and single cell ATAC-seq profile with scalability for atlas scale data-sets. Unipath comes with several features like psuedo-temporal ordering using pathway scores and unconventional way of enumerating differences between two cell populations.
Defines functions
minimum_spanning_tree
Documented in
minimum_spanning_tree
#' Finding minimum spanning tree using shrinked distance matrix
#'
#' @param distance shrinked distance matrix
#'
#' @return Minimum spanning tree
#' @export
#'
#' @examples
#' minimum_spanning_tree()
minimum_spanning_tree <- function(distance){
corr_g<- igraph::graph.adjacency(as.matrix(distance) ,mode="undirected",weighted=TRUE,diag = FALSE,add.rownames = NA,add.colnames = NA)
corr_mst <- igraph::mst(corr_g)
return(corr_mst)
}
reggenlab/UniPath documentation built on Nov. 26, 2020, 8:09 a.m.
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Defines functions minimum_spanning_tree
Documented in minimum_spanning_tree
#' Finding minimum spanning tree using shrinked distance matrix
#'
#' @param distance shrinked distance matrix
#'
#' @return Minimum spanning tree
#' @export
#'
#' @examples
#' minimum_spanning_tree()
minimum_spanning_tree <- function(distance){
corr_g<- igraph::graph.adjacency(as.matrix(distance) ,mode="undirected",weighted=TRUE,diag = FALSE,add.rownames = NA,add.colnames = NA)
corr_mst <- igraph::mst(corr_g)
return(corr_mst)
}
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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