RunSNF: Generate shared factor neighborhood graph

In satijalab/seurat-wrappers: Community-Provided Methods and Extensions for the Seurat Object

Generate shared factor neighborhood graph

Description

This is a deprecated function. Call 'RunQuantileNorm' instead.

Usage

RunSNF(
  object,
  split.by = "orig.ident",
  reduction = "iNMF_raw",
  dims.use = NULL,
  dist.use = "CR",
  center = FALSE,
  knn_k = 20,
  k2 = 500,
  small.clust.thresh = knn_k,
  ...
)

Arguments

object	A merged Seurat object
split.by	Attribute for splitting, defaults to "orig.ident"
reduction	Name of reduction to use
...	Arguments passed to other methods

Value

A Seurat object with the SNF list stored in the tool slot, accessible with Tool

See Also

RunQuantileNorm Tool

satijalab/seurat-wrappers documentation built on April 10, 2024, 3:25 p.m.