zscores.from.metrics

This function takes a dataframe of QC metrics, and calculates the
the z-scores. If filename is specified, the results will be saved to file.

A method that analyzes quality control metrics from multi-sample genomic sequencing studies and nominates poor quality samples for exclusion. Per sample quality control data are transformed into z-scores and aggregated. The distribution of aggregated z-scores are modelled using parametric distributions. The parameters of the optimal model, selected either by goodness-of-fit statistics or user-designation, are used for outlier nomination. Two implementations of the Cosine Similarity Outlier Detection algorithm are provided with flexible parameters for dataset customization.

Paul Boutros

OmicsQC

Nominating Quality Control Outliers in Genomic Profiling Studies

Anders Hugo Frelin

Helen Zhu

Paul C. Boutros

zscores.from.metrics function

<dl><dt>qc.data</dt>
<dd>A dataframe whose rows are samples and each column a QC metric</dd>
<dt>filename</dt>
<dd>A filename where to save data. If NULL data will not be saved to file</dd></dl>

Arguments

Calculate z-scores for each metric across each sample — zscores.from.metrics

<dl>

<dt>qc.data</dt>
<dd>A dataframe whose rows are samples and each column a QC metric</dd>


<dt>filename</dt>
<dd>A filename where to save data. If NULL data will not be saved to file</dd>

</dl>

zscores.from.metrics: Calculate z-scores for each metric across each sample

Description

Usage

Value

Arguments