accumulate.zscores

This function takes a dataframe of all the sign corrected scores, thus all negative, and aggregates
to get a total sample quality score.

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

accumulate.zscores function

<dl><dt>zscores.corrected</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

Sum across sign corrected z-scores for total sample quality score — accumulate.zscores

<dl>

<dt>zscores.corrected</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>

accumulate.zscores: Sum across sign corrected z-scores for total sample quality score

Description

Usage

Value

Arguments