filterFeatures.fractionExpressed: Filter genes by fraction of samples detected as expressed

In jhsiao999/ashbun: Methods and evaluation tools for single cell RNA-seq count data

Usage

filterFeatures.fractionExpressed(counts, condition, thresholdDetection = 1,
  fractionExpressed = 0.01, control = list(plot = FALSE))

Arguments

counts	Gene by sample expression count matrix (G by N).
thresholdDetection	minimum count (or tpm or cpm, depends on the data) required to qualified as "detected as expressed".
fractionExpressed	fraction of samples qualified as detected as expressed.
control	List with the following arguments plot TRUE/FALSE to output diagnositic plot.

Value

List of the following objects fraction_expressed_cond fraction of samples qualified as "expressed" in each condition. index_filter TRUE/FALSE passing the filter.

jhsiao999/ashbun documentation built on May 8, 2019, 11:17 p.m.