buildSNN: Build SNN matrix

In sqjin/CellChat: Inference and analysis of cell-cell communication from single-cell and spatial transcriptomics data

Build SNN matrix

Description

Build SNN matrix

Usage

buildSNN(data.use, k = 10, k.scale = 10, prune.SNN = 1/15)

Arguments

data.use	Features x samples matrix to use to build the SNN
k	Defines k for the k-nearest neighbor algorithm
k.scale	Granularity option for k.param
prune.SNN	Sets the cutoff for acceptable Jaccard distances when computing the neighborhood overlap for the SNN construction.

Value

Returns similarity matrix in sparse matrix format

sqjin/CellChat documentation built on Nov. 10, 2023, 4:29 a.m.