Count fragments surrounding motif sites

Source: R/motifs.R

Count the number of sequenced DNA fragments in a region surrounding each instance of a given DNA sequence motif.

MotifCounts(
  object,
  motifs,
  flanking.region = 1000,
  assay = NULL,
  verbose = TRUE,
  ...
)

Arguments

object

A Seurat object
motifs

A list of DNA sequence motif names. One matrix will be generated for each motif
flanking.region

Amount of sequence to include surrounding the motif itself
assay

Name of assay to use. Must be a ChromatinAssay
verbose

Display messages
...

Additional arguments passed to FeatureMatrix

Value

Returns a list of sparse matrices