Access and modify sequence information for ChromatinAssay objects

Source: R/genomeinfodb-methods.R

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

# S4 method for ChromatinAssay
seqinfo(x)

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

# S4 method for ChromatinAssay
seqlevels(x)

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

# S4 method for ChromatinAssay
seqnames(x)

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

# S4 method for ChromatinAssay
seqlengths(x)

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

# S4 method for ChromatinAssay
genome(x)

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

# S4 method for ChromatinAssay
isCircular(x)

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

# S4 method for Seurat
seqinfo(x)

# S4 method for Seurat
seqinfo(x) <- value

# S4 method for Seurat
seqlevels(x)

# S4 method for Seurat
seqlevels(x) <- value

# S4 method for Seurat
seqnames(x)

# S4 method for Seurat
seqnames(x) <- value

# S4 method for Seurat
seqlengths(x)

# S4 method for Seurat
seqlengths(x) <- value

# S4 method for Seurat
genome(x)

# S4 method for Seurat
genome(x) <- value

# S4 method for Seurat
isCircular(x)

# S4 method for Seurat
isCircular(x) <- value

Arguments

x

A ChromatinAssay object
value

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

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

  • seqinfo,Seurat-method: get method for Seurat objects

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

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

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

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

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

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

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

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

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

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

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

See also