Calculate and make a quality call for relative copy number profiles

Function to classify the quality of relative copy number profile calls from QDNAseq or WiseCondorX.

Usage

GetSampleQualityDecision(x, metric = "quantile", cutoff = 0.95)

Arguments

x: QDNASeq object containing the relative copy number calls as well as the segmented relative copy number calls.
metric: The metric to use for determining quality. Either 'quantile' or 'DecisionTree'.
cutoff: The cutoff to use for quantile-based quality filtering. Not applicable when the metric is 'DecisionTree'.

Value

A dataframe of sample quality decisions ("Low" or "High" quality sample)

Details

Expects the input of a QDNAseq object containing relative copy-number calls (such as from QDNASeq or WiseCondorX).
Classifies relative copy number profiles as "High" or "Low" quality.