Classify_cells: Classify single-cells or in vitro cell lines Classifies the...

In tolgaturan-github/IBRIDGE: IBRIDGE integrates bulk and single-cell datasets to profile granular heterogeneity of TIME, acting as a 'bridge' between data types.

Classify single-cells or in vitro cell lines Classifies the input single-cell or in vitro cell line data into "inflamed", "cold" or "unassigned" bins

Description

Classify single-cells or in vitro cell lines Classifies the input single-cell or in vitro cell line data into "inflamed", "cold" or "unassigned" bins

Usage

Classify_cells(
  seu1,
  iBRIDGE_features,
  norm_method = "SCTransform",
  n_cores = 1
)

Arguments

seu1	Output of UMI count matrix normalized by Seurat workflows
iBRIDGE_features	Output of IBRIDGE_overlaps function.
norm_method	"SCTransform" or "NormalizeData". Defaults to "SCTransform"
n_cores	Integer of length 1. Specifies the number of parallel cores running the function. Defaults to 1

Value

A seurat_object with metadata updated with iBRIDGE classification

Author(s)

Tolga Turan, [e-mail]

References

http://github.com/tolgaturan-github/IBRIDGE

Examples

seu1<-Classify_cells(seu1, iBRIDGE_feautures, "SCTransform", 100)

tolgaturan-github/IBRIDGE documentation built on July 30, 2023, 12:08 p.m.