monocle (version 1.6.2)

selectNegentropyGenes: Filter genes with extremely high or low negentropy

Description

Filter genes with extremely high or low negentropy

Usage

selectNegentropyGenes(cds, lower_negentropy_bound = "0%",
  upper_negentropy_bound = "99%", expression_lower_thresh = 0.1,
  expression_upper_thresh = Inf)

Arguments

cds

a CellDataSet object upon which to perform this operation

lower_negentropy_bound

the centile below which to exclude to genes

upper_negentropy_bound

the centile above which to exclude to genes

expression_lower_thresh

the expression level below which to exclude genes used to determine negentropy

expression_upper_thresh

the expression level above which to exclude genes used to determine negentropy

Value

• a vector of gene names

Examples

reasonableNegentropy <- selectNegentropyGenes(HSMM, "07%", "95%", 1, 100)