GetFootprintData

Extract footprint data for a set of transcription factors or metafeatures.
This function will pull accessibility data for a given feature (eg, a TF),
and perform background normalization for each identity class. This is the
data that's used to create TF footprinting plots with the
<code>PlotFootprint</code> function.

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 et al. (2021) <doi:10.1038/s41592-021-01282-5>.

Tim Stuart

Signac

Analysis of Single-Cell Chromatin Data

Avi Srivastava

Paul Hoffman

Rahul Satija

GetFootprintData function

<dl><dt>object</dt>
<dd>A Seurat object</dd>
<dt>features</dt>
<dd>A vector of features to extract data for</dd>
<dt>assay</dt>
<dd>Name of assay to use</dd>
<dt>group.by</dt>
<dd>A grouping variable</dd>
<dt>idents</dt>
<dd>Set of identities to group cells by</dd></dl>

Arguments

Get footprinting data — GetFootprintData

<dl>

<dt>object</dt>
<dd>A Seurat object</dd>


<dt>features</dt>
<dd>A vector of features to extract data for</dd>


<dt>assay</dt>
<dd>Name of assay to use</dd>


<dt>group.by</dt>
<dd>A grouping variable</dd>


<dt>idents</dt>
<dd>Set of identities to group cells by</dd>

</dl>

GetFootprintData: Get footprinting data

Description

Usage

Value

Arguments