alphabetScore

An object of class <code>QualityScore</code>.

object

This generic takes a <code>QualityScore</code> or
 <code>PhredQuality</code> object and calculates, for each read, the sum of
 the encoded nucleotide probabilities.

manip

This package implements sampling, iteration, and input of
FASTQ files. The package includes functions for filtering and
trimming reads, and for generating a quality assessment report.
Data are represented as DNAStringSet-derived objects, and
easily manipulated for a diversity of purposes.  The package
also contains legacy support for early single-end, ungapped
alignment formats.

Bioconductor Package Maintainer

ShortRead

FASTQ input and manipulation

alphabetScore function

An object of class <code><linkS4class>QualityScore</linkS4class></code>.

This generic takes a <code><linkS4class>QualityScore</linkS4class></code> or
 <code>PhredQuality</code> object and calculates, for each read, the sum of
 the encoded nucleotide probabilities.

alphabetScore: Efficiently calculate the sum of quality scores across bases

Description

Usage

Arguments

Value