CalcPCHeuristics: Calculate heuristic metrics to determine optimal number of...

In joshpeters/westerlund: A toolkit for single-cell data

Description

Calculate heuristic metrics to determine optimal number of principal components for downstream analyses

Usage

CalcPCHeuristics(
  seurat.obj,
  reduction = "pca",
  store.name = "pca_metrics",
  percent.stdev.range = 0.05,
  set.pcs = NA,
  force_tp = FALSE
)

Arguments

seurat.obj	Seurat object
percent.stdev.range	Percent of PCA standard deviation range to use for
set.pcs	Number of PCs to use for maximum distance and derivative calculations
derivs.change.threshold	Threshold used for second derivative changes

Value

Returns object with optimal PC information within the object@misc slot

joshpeters/westerlund documentation built on Sept. 9, 2021, 2:11 p.m.