SequenceModDNAStringSetTrack-class: ModDNASequenceTrack

In RNAmodR: Detection of post-transcriptional modifications in high throughput sequencing data

Description

A Gviz compatible SequenceTrack for showing modified DNA sequences.

Usage

ModDNASequenceTrack(sequence, chromosome, genome, name = "SequenceTrack", ...)

## S4 method for signature 'SequenceModDNAStringSetTrack'
seqnames(x)

## S4 method for signature 'SequenceModDNAStringSetTrack'
seqlevels(x)

Arguments

sequence	A character vector or ModDNAString object of length one. The sequence to display. See SequenceTrack.
chromosome, genome, name, ...	See SequenceTrack.
x	A SequenceModDNAStringSetTrack object.

Value

a SequenceModDNAStringSetTrack object

Slots

sequence

A ModDNAStringSet object

Examples

seq <- ModDNAStringSet(c(chr1 = paste0(alphabet(ModDNAString()),
                                       collapse = "")))
st <- ModDNASequenceTrack(seq)
Gviz::plotTracks(st, chromosome = "chr1",from = 1L, to = 20L)

RNAmodR documentation built on Dec. 15, 2020, 2 a.m.