calculate.replicate.variance: Determine count variance across replicate samples

In uclahs-cds/public-R-NanoStringNormCNV: Helper Functions to Normalize NanoString CNV Data

Determine count variance across replicate samples

Description

Quantifies normalized count variance for all genes/probes found across sample replicates

Usage

calculate.replicate.variance(normalized.data.reps, phenodata.reps, var.function = 'sd')

Arguments

normalized.data.reps	A gene by sample data-frame of normalized NanoString counts for all replicate samples. Column names must match sample IDs found in 'phenodata.reps'.
phenodata.reps	A data-frame containing sample annotation for all replicate samples. Must include columns 'Name' and 'SampleID'. Replicates belonging to a single sample are identified as such by their matching sample names (phenodata column 'Name'). See output of load.phenodata
var.function	The variance-type function to be used. Defaults to 'sd'

Value

A gene by sample name data-frame of variances

Author(s)

Cindy Yao and Emilie Lalonde

See Also

NanoStringNormCNV:::calculate.replicate.concordance

uclahs-cds/public-R-NanoStringNormCNV documentation built on May 31, 2024, 9:09 p.m.