qualityControl: Quality control measures for binned read counts

Description Usage Arguments Details Value Functions Author(s)

Description

Calculate various quality control measures on binned read counts.

Usage

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qc.spikiness(counts)

qc.entropy(counts)

qc.bhattacharyya(hmm)

qc.sos(hmm)

Arguments

counts

A vector of binned read counts.

hmm

An aneuHMM object.

Details

The Shannon entropy is defined as S = - sum( n * log(n) ), where n = counts/sum(counts).

Spikyness is defined as K = sum(abs(diff(counts))) / sum(counts).

Value

A numeric.

Functions

Author(s)

Aaron Taudt


ataudt/aneufinder documentation built on Nov. 21, 2018, 10:10 a.m.