estimate_score: Calculates geneset scores using totals

In scfurl/m3addon: This package adds to the popular "monocle3"

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/m3addon documentation built on Aug. 9, 2021, 5:30 p.m.