MotifCounts {Signac}

Count fragments surrounding motif sites

Description

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

Usage

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