Annotation function

Annotation

Get the annotation from a ChromatinAssay

Annotation(object, ...)

Annotation(object, ...) <- value

## S3 method for class 'ChromatinAssay'
Annotation(object, ...)

## S3 method for class 'Seurat'
Annotation(object, ...)

## S3 replacement method for class 'ChromatinAssay'
Annotation(object, ...) <- value

## S3 replacement method for class 'Seurat'
Annotation(object, ...) <- value

Arguments

• object: A Seurat object or ChromatinAssay object
• ...: Arguments passed to other methods
• value: A value to set. Can be NULL, to remove the current annotation information, or a GRanges object. If a GRanges object is supplied and the genome information is stored in the assay, the genome of the new annotations must match the genome of the assay.

Returns

Returns a GRanges object if the annotation data is present, otherwise returns NULL

Examples

Annotation(atac_small[["peaks"]])

Annotation(atac_small)

genes <- Annotation(atac_small)
Annotation(atac_small[["peaks"]]) <- genes
genes <- Annotation(atac_small)
Annotation(atac_small) <- genes