as.ChromatinAssay: Convert objects to a ChromatinAssay

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

Convert objects to a ChromatinAssay

Description

Convert objects to a ChromatinAssay

Usage

as.ChromatinAssay(x, ...)

## S3 method for class 'Assay'
as.ChromatinAssay(
  x,
  ranges = NULL,
  seqinfo = NULL,
  annotation = NULL,
  motifs = NULL,
  fragments = NULL,
  bias = NULL,
  positionEnrichment = NULL,
  sep = c("-", "-"),
  ...
)

Arguments

x	An object to convert to class ChromatinAssay
...	Arguments passed to other methods
ranges	A GRanges object
seqinfo	A Seqinfo object containing basic information about the genome used. Alternatively, the name of a UCSC genome can be provided and the sequence information will be downloaded from UCSC.
annotation	Genomic annotation
motifs	A Motif object
fragments	A list of Fragment objects
bias	Tn5 integration bias matrix
positionEnrichment	A named list of position enrichment matrices.
sep	Characters used to separate the chromosome, start, and end coordinates in the row names of the data matrix

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