upstreamSeqs-class {harbChIP} | R Documentation

## Class "upstreamSeqs"

### Description

container for a collection of upstream sequences

### Objects from the Class

Objects can be created by calls of the form `new("upstreamSeqs", ...)`. Environments are used to store collections of DNAstrings.

### Slots

`seqs`:
  Object of class `"environment"` ~~
`chrom`:
  Object of class `"environment"` ~~
`revComp`:
  Object of class `"environment"` ~~
`type`:
  Object of class `"environment"` ~~
`organism`:
  Object of class `"character"` ~~
`provenance`:
  Object of class `"ANY"` ~~

### Methods

Nmers
  `signature(n = "numeric", orf = "character", usobj = "upstreamSeqs")`: obtain all subsequences of length n as view elements of a DNA string
keys
  `signature(x = "upstreamSeqs")`: ...
organism
  `signature(x = "upstreamSeqs")`: ...
seqs
  `signature(x = "upstreamSeqs")`: ...
show
  `signature(object = "upstreamSeqs")`: ...

### Author(s)

~~who you are~~

### Examples

    showClass("upstreamSeqs")
    data(sceUpstr)
    sceUpstr
    keys(sceUpstr)[1:5]

[Package harbChIP version 0.0.8 Index]