Coordinates-class: Coordinates class

In gstricker/fastGenoGAM: A GAM based framework for analysis of ChIP-Seq data

Description

This class mainly exists to overcome the lack of long integer use in R and the IRanges class in particular. The object is basically a restricted DataFrame object, with a few custom methods to mimic the behaviour of IRanges.

Coordinates is the constructor function for the Coordinates-class.

Usage

Coordinates(start = NULL, end = NULL)

## S4 method for signature 'Coordinates'
length(x)

## S4 method for signature 'Coordinates'
nrow(x)

## S4 method for signature 'Coordinates'
ncol(x)

## S4 method for signature 'Coordinates'
start(x)

## S4 method for signature 'Coordinates'
end(x)

## S4 method for signature 'Coordinates'
width(x)

## S4 replacement method for signature 'Coordinates'
end(x) <- value

## S4 replacement method for signature 'Coordinates'
start(x) <- value

## S4 method for signature 'Coordinates'
width(x)

Arguments

start	The start vector, must be of same length as the end vector
end	The end vector, must be of same length as the start vector
x	The Coordinates object
value	A numeric vector. For replace method in 'start' and 'end'.

Value

An object of class Coordinates

Methods (by generic)

• length: The length method

• nrow: The nrow method

• ncol: The ncol method

• start: The start accessor

• end: The end accessor

• width: The width accessor

• end<-: Replacement method for end

• start<-: Replacement method for end

• width: The width accessor

Author(s)

Georg Stricker [e-mail]

gstricker/fastGenoGAM documentation built on May 17, 2019, 8:56 a.m.