AmpliconViews-class: An S4 class for amplicon bisulfite sequencing

Description Slots Details Constructor Subsetting Accessors Examples

Description

This class is designed to hold methylat ion statistics and locations for targeted amplicons from a amplicon bisulfite sequencing experiment . AmpliconViews function returns an object of AmpliconViews class.

Slots

sampleNames

Names of samples in a vector

amplicons

GRanges object for locations of the amplicons

data

list structure holding the information on amplicons

Details

AmpliconViews class is desingned to contain amplicon information such as methylation, coverage, meta-patterns and similarities between CpG profiles.

Constructor

see AmpliconViews

Subsetting

an AmpliconViews object containing multiple amplicons and samples can be subsetted using getAmplicon function.

Accessors

The following functions provides access to data slots of methylDiff: getSamples,getAmpliconRanges, getAmplicon, getMetaMethylation

Examples

1
library(GenomicRanges)

BIMSBbioinfo/AmpliconBiSeq documentation built on May 5, 2019, 10:25 a.m.