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Remove mitochondrial and ribosomal genes, and other highly correlated genes

Source: R/helper_celltype_expression.R
remove_mito_ribo.Rd

This function removes mitochondria and ribosomal genes and genes highly correlated with these genes, as mitochondria and ribosomal genes are typically not interesting to look at.

Usage

remove_mito_ribo(alldata)

Arguments

alldata

A list object containing expression data

Value

The list object with the mitochrondrial and ribosomal genes and other highly correlated genes removed

Examples


utils::data("example_scrnaseq" , package = "scFeatures")
data <- example_scrnaseq
#> Loading required package: SeuratObject
#> Loading required package: sp
#> 'SeuratObject' was built with package 'Matrix' 1.6.1.1 but the current
#> version is 1.6.4; it is recomended that you reinstall 'SeuratObject' as
#> the ABI for 'Matrix' may have changed
#> 
#> Attaching package: 'SeuratObject'
#> The following object is masked from 'package:base':
#> 
#>     intersect
data <- list(data = data@assays$RNA@data)
data <- remove_mito_ribo(data)