Add DNA sequence motif information — AddMotifs • Signac

Construct a Motif object containing DNA sequence motif information and add it to an existing Seurat object or ChromatinAssay. If running on a Seurat object, AddMotifs will also run RegionStats to compute the GC content of each peak and store the results in the feature metadata.

AddMotifs(object, ...)

# S3 method for default
AddMotifs(object, genome, pfm, verbose = TRUE, ...)

# S3 method for ChromatinAssay
AddMotifs(object, genome, pfm, verbose = TRUE, ...)

# S3 method for Seurat
AddMotifs(object, genome, pfm, assay = NULL, verbose = TRUE, ...)

Arguments

object	A Seurat object or ChromatinAssay object
...	Additional arguments passed to other methods
genome	A `BSgenome` object
pfm	A `PFMatrixList` object
verbose	Display messages
assay	Name of assay to use. If NULL, use the default assay

Value

When running on a ChromatinAssay or Seurat object, returns a modified version of the input object. When running on a matrix, returns a Motif object.