CombinedNormalizedCounts: CombinedNormalizedCounts

Description Usage Arguments Value Author(s) Examples

Description

This function makes use of Total sum scaling or NOISeq::tmm to normalize the read counts of all samples and references to the same median read count

Usage

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    CombinedNormalizedCounts(sampleCounts,
                            referenceCounts,
                            method,
                            ampliconNames = NULL)

Arguments

sampleCounts

Matrix or vector with sample read counts (rows: amplicons, columns: samples)

referenceCounts

Matrix with reference read counts (rows: amplicons, columns: samples)

method

either "tmm" (trimmed mean of m values) or "tss"(total sum scaling)

ampliconNames

A vector with amplicon defining names for the reference and sample matrices

Value

A list object with two matrices

samples

The samples matrix normalized

reference

The reference matrix normalized

Author(s)

Cristiano Oliveira, Thomas Wolf

Examples

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CNVPanelizer documentation built on Nov. 8, 2020, 6:47 p.m.