Motif-class

Motif

The Motif class stores DNA motif information

A framework for the analysis and exploration of single-cell chromatin data.
The 'Signac' package contains functions for quantifying single-cell chromatin data,
computing per-cell quality control metrics, dimension reduction
and normalization, visualization, and DNA sequence motif analysis.
Reference: Stuart and Butler et al. (2019) <doi:10.1016/j.cell.2019.05.031>.

Tim Stuart

Signac

Analysis of Single-Cell Chromatin Data

Paul Hoffman

Rahul Satija

Motif-class function

<dl class="dl-horizontal">
<dt><code>data</code></dt><dd>A sparse, binary, feature x motif matrix. Columns
correspond to motif IDs, rows correspond to genomic features
(peaks or bins). Entries in the matrix should be 1 if the
genomic feature contains the motif, and 0 otherwise.</dd></dl><dt><code>pwm</code></dt><dd>A named list of position weight matrices</dd><dt><code>motif.names</code></dt><dd>A list containing the name of each motif</dd><dt><code>meta.data</code></dt><dd>A dataframe for storage of additional
information related to each motif. This could include the
names of proteins that bind the motif.</dd>

Motif-class: The Motif class

Description

Arguments

Slots