sctype_score: sctype_score: calculate ScType scores and assign cell types

In WubingZhang/scAnalyzer: Integrative analysis pipeline for analyzing single-cell RNA-seq data

sctype_score: calculate ScType scores and assign cell types

Description

GNU General Public License v3.0 (https://github.com/IanevskiAleksandr/sc-type/blob/master/LICENSE)

Usage

sctype_score(
  scRNAseqData,
  scaled = !0,
  gs,
  gs2 = NULL,
  gene_names_to_uppercase = !0,
  ...
)

Arguments

scRNAseqData	- input scRNA-seq matrix (rownames - genes, column names - cells),
gs	- list of gene sets positively expressed in the cell type
gs2	- list of gene sets that should not be expressed in the cell type (NULL if not applicable)
scale	- indicates whether the matrix is scaled (TRUE by default)

Value

A data frame with ScType scores for each cell type.

Author(s)

Aleksandr Ianevski <[e-mail]>, June 2021

WubingZhang/scAnalyzer documentation built on Jan. 30, 2023, 10:11 p.m.