filterLowCountGenes {TCC} | R Documentation |
This function takes a TCC object and returns a new TCC object
without genes having low count tags across samples.
The threshold is configurable with low.count
parameter.
filterLowCountGenes(tcc, low.count = 0)
tcc |
TCC-class object. |
low.count |
numeric value (>= 0) specifying the threshold for filtering genes. The higher value indicates the more numbers of genes to be filtered out. |
TCC-class object consisting of genes whose total counts
across samples is higher than the low.count
value.
# Filtering genes with zero counts across samples (default) from # a hypothetical count dataset that originally has 1,000 genes. data(hypoData) group <- c(1, 1, 1, 2, 2, 2) tcc <- new("TCC", hypoData, group) dim(tcc$count) tcc <- filterLowCountGenes(tcc) dim(tcc$count) # Filtering genes with 10 counts across samples from hypoData. data(hypoData) group <- c(1, 1, 1, 2, 2, 2) tcc <- new("TCC", hypoData, group) dim(tcc$count) tcc <- filterLowCountGenes(tcc, 10) dim(tcc$count)