How to label several different mitochondrial genes with non conventional names

[CampbellClark1]

Hi,

My species doesn't have the same labelling of mitochondrial genes as mouse or human does. So I'm trying to set the names of them. I have the list of the the mitochondrial gene names here.

https://www.ncbi.nlm.nih.gov/genome/browse/#!/proteins/196/995304%7COncorhynchus%20mykiss/mitochondrion%20MT/

I've tried running

ap2[["percent.mt"]] <- PercentageFeatureSet(ap2, pattern = "COX1,COX2,COX3,ND1,ND2,ND3,ND4L,ND4,ND5,ND6,CYTB,ATP6,ATP8")

ap2[["percent.mt"]] <- PercentageFeatureSet(ap2, pattern = c("COX1,COX2,COX3,ND1,ND2,ND3,ND4L,ND4,ND5,ND6,CYTB,ATP6,ATP8"))

ap2[["percent.mt"]] <- PercentageFeatureSet(ap2, pattern = c("COX1","COX2","COX3","ND1","ND2","ND3","ND4L","ND4","ND5","ND6","CYTB","ATP6","ATP8"))

But I either get errors or it doesn't count them. I can get the above code to work if I only run one of the genes

ap2[["percent.mt"]] <- PercentageFeatureSet(ap2, pattern = "COX1")

But I need to be able to count all of them. Could someone point out what I'm doing wrong?

[timoast]

To give a list of gene names, you need to use the features parameter rather than the pattern parameter. pattern specifies a regular expression used to match feature names.

[CampbellClark1]

Thank you so much! Was a simple fix