estimate_score: Calculates geneset scores using totals

In scfurl/viewmaster: This package aims annotate scRNAseq data according to a reference

Calculates geneset scores using totals

Description

Geneset scores are a score calculated for each single cell derived from more than one gene. In this implementation, the sum of the size-factor corrected, log-normalized gene expression for a give set of genes is performed

Usage

estimate_score(cds, marker_set1, fData_col = "gene_short_name")

Arguments

cds	Input cell_data_set object.
marker_set1	Vector of genes in the gene_metadata DataFrame (fData) that can be found in the column 'fData_col'
fData_col	Character string denoting the gene_metadata DataFrame (fData) column that contains the genes in marker_set1. Default = 'gene_short_name'

Value

Vector of single cell scores that are derived from the sum of all gene expression values in the geneset that were size factor corrected and log-normalized.

scfurl/viewmaster documentation built on Nov. 22, 2022, 2:59 p.m.