as.ChromatinAssay: Convert objects to a ChromatinAssay

Description Usage Arguments

View source: R/generics.R

Description

Convert objects to a ChromatinAssay

Usage

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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 Dec. 14, 2021, 11:34 p.m.