GetLinkedGenes: Get genes linked to peaks

In timoast/signac: Analysis of Single-Cell Chromatin Data

Get genes linked to peaks

Description

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

Usage

GetLinkedGenes(object, features, assay = NULL, min.abs.score = 0)

Arguments

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

Details

This function is designed to obtain the stored results from running the LinkPeaks function. Alternatively, custom peak-gene linkage methods can be used as long as they store the gene name, peak name, and a peak-gene score information as metadata columns named "gene," "peak," and "score" respectively.

See Also

GetLinkedPeaks

timoast/signac documentation built on Aug. 23, 2024, 1:48 a.m.