GetLinkedPeaks

Retrieve peak-gene links for a given set of genes. Links must be first
obtained by running the <code>LinkPeaks</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

GetLinkedPeaks function

<dl><dt>object</dt>
<dd>A Seurat object</dd>
<dt>features</dt>
<dd>A list of genes to find linked peaks for</dd>
<dt>assay</dt>
<dd>Name of assay to use. If NULL, use the default assay</dd>
<dt>min.abs.score</dt>
<dd>Minimum absolute value of the link score for a link to
be returned</dd></dl>

Arguments

Get peaks linked to genes — GetLinkedPeaks

<dl>

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


<dt>features</dt>
<dd>A list of genes to find linked peaks for</dd>


<dt>assay</dt>
<dd>Name of assay to use. If NULL, use the default assay</dd>


<dt>min.abs.score</dt>
<dd>Minimum absolute value of the link score for a link to
be returned</dd>

</dl>

GetLinkedPeaks: Get peaks linked to genes

Description

Usage

Arguments

Details

See Also