Definition of negative and positive control miRNAs for DANA normalization assessment

Definition of negative and positive control miRNAs for DANA normalization assessment

Usage

defineControls(raw, tZero, tPoor, tWell, clusters)

Arguments

raw

Raw read count matrix (rows = genes, cols = samples). The matrix rows and columns must be named, with rownames=miRNAs and colnames=samples.

tZero

Lower (read count) bound for the definition of negative controls.

tPoor

Upper (read count) bound for the definition of negative controls.

tWell

Lower (read count) bound for the definition of positive controls.

clusters

Named Vector of clusters. Associates each miRNA in raw to a polycistronic cluster. Usually generated using the function defineClusters.

Value

List of two vectors:

posControls

Vector of positive control markers (miRNAs) in raw.

negControls

Vector of negative control markers (miRNAs) in raw.