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Signac

CreateMotifObject

Create motif object

Description

Create a Motif-class object.

Usage

CreateMotifObject(
  data = NULL,
  pwm = NULL,
  motif.names = NULL,
  positions = NULL,
  meta.data = NULL
)

Arguments

data

A motif x region matrix
pwm

A named list of position weight matrices or position frequency matrices matching the motif names in data. Can be of class PFMatrixList.
motif.names

A named list of motif names. List element names must match the names given in pwm. If NULL, use the names from the list of position weight or position frequency matrices. This can be used to set a alternative common name for the motif. If a PFMatrixList is passed to pwm, it will pull the motif name from the PFMatrixList.
positions

A GRangesList object containing exact positions of each motif.
meta.data

A data.frame containing metadata

Value

Returns a Motif object

Examples

motif.matrix <- matrix(
  data = sample(c(0,1),
    size = 100,
    replace = TRUE),
  ncol = 5
)
motif <- CreateMotifObject(data = motif.matrix)
Signac

Analysis of Single-Cell Chromatin Data

v1.2.1
MIT + file LICENSE
Authors
Tim Stuart [aut, cre] (<https://orcid.org/0000-0002-3044-0897>), Avi Srivastava [aut] (<https://orcid.org/0000-0001-9798-2079>), Paul Hoffman [ctb] (<https://orcid.org/0000-0002-7693-8957>), Rahul Satija [ctb] (<https://orcid.org/0000-0001-9448-8833>)
Initial release
2021-05-11

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