find_percentage_genes: Calculates the fraction of counts from genes matching a...

In connorhknight/IBRAP: Integrated Benchmarking scRNA-seq Analytical Pipeline (IBRAP)

Calculates the fraction of counts from genes matching a pattern string

Description

Subsets gene names that match the pattern supplied. The percentage fraction of this gene group is then calculated.

Usage

find_percentage_genes(object = obj, pattern = '^MT-', assay = 'RAW', slot = 'RAW', column.name = 'RAW_percent.mt')

Arguments

object	IBRAP S4 class object
pattern	A character string containing a pattern to identfiy in rownames
assay	String indicating which assay to source the raw counts from
slot	String indicating which slot within the assay should be sourced
column.name	String naming the column name in the metadata
verbose	Logical should function messages be printed?

Value

IBRAP S4 class object containing highly varaible genes within the source assay

Examples

object <- find_percentage_genes(object = object, pattern = '^MT-',

connorhknight/IBRAP documentation built on March 9, 2023, 7:01 p.m.