expr_housekeeping: Expression level of Housekeeping Genes
In jlaffy/scalop: Single Cell Analysis Operations
expr_housekeeping R Documentation
Expression level of Housekeeping Genes
Description
Often used as a QC parameter for cells in scRNA-seq data. The lower the expression level of housekeeping the genes, the more DNA contamination it suggests for the sample. In scRNAseq cancer data, this value is also used as a cutoff: e.g. a logTPM value >= 2.5 in order for a cell to be retained as HQ and with minimal DNA contamination. note: the list of housekeeping genes is taken from Normal_Markers$Housekeeping
Usage
expr_housekeeping(m, na.rm = T)
Arguments
m
matrix of expression values to test
jlaffy/scalop documentation built on March 24, 2024, 9 a.m.
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| expr_housekeeping | R Documentation |
Expression level of Housekeeping Genes
Description
Often used as a QC parameter for cells in scRNA-seq data. The lower the expression level of housekeeping the genes, the more DNA contamination it suggests for the sample. In scRNAseq cancer data, this value is also used as a cutoff: e.g. a logTPM value >= 2.5 in order for a cell to be retained as HQ and with minimal DNA contamination. note: the list of housekeeping genes is taken from Normal_Markers$Housekeeping
Usage
expr_housekeeping(m, na.rm = T)
Arguments
m |
matrix of expression values to test |
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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