seqinfo-methods: Access and modify sequence information for ChromatinAssay...

In Honchkrow/SignacSlim: The slim version of signac

Access and modify sequence information for ChromatinAssay objects

Description

Methods for accessing and modifying Seqinfo object information stored in a ChromatinAssay object.

Usage

## S4 method for signature 'ChromatinAssay'
seqinfo(x)

## S4 replacement method for signature 'ChromatinAssay'
seqinfo(x) <- value

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

## S4 replacement method for signature 'ChromatinAssay'
seqlevels(x) <- value

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

## S4 replacement method for signature 'ChromatinAssay'
seqnames(x) <- value

## S4 method for signature 'ChromatinAssay'
seqlengths(x)

## S4 replacement method for signature 'ChromatinAssay'
seqlengths(x) <- value

## S4 method for signature 'ChromatinAssay'
genome(x)

## S4 replacement method for signature 'ChromatinAssay'
genome(x) <- value

## S4 method for signature 'ChromatinAssay'
isCircular(x)

## S4 replacement method for signature 'ChromatinAssay'
isCircular(x) <- value

Arguments

x	A ChromatinAssay object
value	A Seqinfo object or name of a UCSC genome to store in the ChromatinAssay

Value

seqinfo-methods

Functions

• seqinfo<-,ChromatinAssay-method: set method for ChromatinAssay objects

• seqlevels,ChromatinAssay-method: get method for ChromatinAssay objects

• seqlevels<-,ChromatinAssay-method: set method for ChromatinAssay objects

• seqnames,ChromatinAssay-method: get method for ChromatinAssay objects

• seqnames<-,ChromatinAssay-method: set method for ChromatinAssay objects

• seqlengths,ChromatinAssay-method: get method for ChromatinAssay objects

• seqlengths<-,ChromatinAssay-method: set method for ChromatinAssay objects

• genome,ChromatinAssay-method: get method for ChromatinAssay objects

• genome<-,ChromatinAssay-method: set method for ChromatinAssay objects

• isCircular,ChromatinAssay-method: get method for ChromatinAssay objects

• isCircular<-,ChromatinAssay-method: set method for ChromatinAssay objects

See Also

• seqinfo in the GenomeInfoDb package.

• ChromatinAssay-class

Examples

print("see https://satijalab.org/signac/reference/chromatinassay-class")

Honchkrow/SignacSlim documentation built on April 9, 2022, 1:49 a.m.