HTOClassification: HTOClassification

In LeiLi-Uchicago/HTOreader: An R package for cell hashing demultiplexing

HTOClassification

Description

main function for HTO group Classification

Usage

HTOClassification(
  object = NULL,
  assay = "HTO",
  method = NULL,
  specify_cutoff = NULL,
  min_limit = NULL
)

Arguments

object	Seurat object
assay	the assay name of Hashtag signals, Default is "HTO"
method	normalize method, could be "CLR" or 'log'. If not specified, will use both methods and return the best results. Default is NULL
specify_cutoff	users can specify their own cutoffs for HTOs instead of letting program to determine them
min_limit	the min limit of cutoff, 1.5 for CLR and 3 for log (empirical value)

LeiLi-Uchicago/HTOreader documentation built on Aug. 14, 2024, 8:38 p.m.