R/index.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
index
Documented in
index
#' Finding K nearest neighbour
#' @param pathwayscores log transformed adjusted p-value matrix
#' @param k Number of k nearest neighbour for each sample or cell
#'
#' @return matrix of indices of nearest neighbour
#' @export
#'
#' @examples
#'
#' index()
index <- function(pathwayscores,k=5){
k = FNN::get.knn(t(pathwayscores),k)
index = k$nn.index
return(index)
}
reggenlab/UniPath documentation built on Nov. 26, 2020, 8:09 a.m.
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Defines functions index
Documented in index
#' Finding K nearest neighbour
#' @param pathwayscores log transformed adjusted p-value matrix
#' @param k Number of k nearest neighbour for each sample or cell
#'
#' @return matrix of indices of nearest neighbour
#' @export
#'
#' @examples
#'
#' index()
index <- function(pathwayscores,k=5){
k = FNN::get.knn(t(pathwayscores),k)
index = k$nn.index
return(index)
}
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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