MotifCounts: Count fragments surrounding motif sites

In timoast/signac: Analysis of Single-Cell Chromatin Data

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

timoast/signac documentation built on Aug. 23, 2024, 1:48 a.m.