clustermole_overlaps

Perform overrepresentation analysis for a set of genes compared to all cell type signatures.

Assignment of cell type labels to single-cell RNA sequencing (scRNA-seq) clusters is often a time-consuming process that involves manual inspection of the cluster marker genes complemented with a detailed literature search. This is especially challenging when unexpected or poorly described populations are present. The clustermole R package provides methods to query thousands of human and mouse cell identity markers sourced from a variety of databases.

Igor Dolgalev

clustermole

Unbiased Single-Cell Transcriptomic Data Cell Type
Identification

clustermole_overlaps function

<dl><dt>genes</dt>
<dd>A vector of genes.</dd>
<dt>species</dt>
<dd>Species: <code>hs</code> for human or <code>mm</code> for mouse.</dd></dl>

Arguments

Cell types based on overlap of marker genes — clustermole_overlaps

<dl>

<dt>genes</dt>
<dd>A vector of genes.</dd>


<dt>species</dt>
<dd>Species: <code>hs</code> for human or <code>mm</code> for mouse.</dd>

</dl>

clustermole_overlaps: Cell types based on overlap of marker genes

Description

Usage

Value

Arguments

Examples