madScore: Calculate MAD scores as per OmicSoft

In pinin4fjords/shinyngs: Shiny apps for NGS data

Calculate MAD scores as per OmicSoft

Description

Folllows description at https://wiki.arrayserver.com/wiki/index.php?title=CorrelationQC.pdf.

Usage

madScore(matrix, sample_sheet = NULL, groupby = NULL, outlier_threshold = -5)

Arguments

matrix	Matrix with samples by column
sample_sheet	Sample sheet with samples by row
groupby	Sample sheet column that can be used to group samples
outlier_threshold	Value below which points should be flagged as outliers, conventionally -5

Details

Not currently deployed anywhere in shinyngs, but a potential way of flagging outliers for investigation

Value

mad_score A data frame with columns for group name, MAD score and outlier status. A threshold of < -5 usually indicates outliers

pinin4fjords/shinyngs documentation built on Jan. 18, 2025, 7:09 p.m.