plotSeuratDot

This function generates dot plots for the markers obtained from the
<code>check_marker</code> function for specified cluster groups within a Seurat object.
The plots are saved to a temporary directory.

Provides a comprehensive toolkit for single-cell annotation with the 'CellMarker2.0' database (see Xia Li, Peng Wang, Yunpeng Zhang (2023) <doi: 10.1093/nar/gkac947>). Streamlines biological label assignment in single-cell RNA-seq data and facilitates transcriptomic analysis, including preparation of TCGA<https://portal.gdc.cancer.gov/> and GEO<https://www.ncbi.nlm.nih.gov/geo/> datasets, differential expression analysis and visualization of enrichment analysis results. Additional utility functions support various bioinformatics workflows. See Wei Cui (2024) <doi: 10.1101/2024.09.14.609619> for more details.

Wei Cui

easybio

Comprehensive Single-Cell Annotation and Transcriptomic Analysis
Toolkit

plotSeuratDot function

<dl><dt>srt</dt>
<dd>A Seurat object containing the single-cell data.</dd>
<dt>cls</dt>
<dd>A list containing cluster groups to check. Each element of the list
should correspond to a cluster or a group of clusters for which to generate
dot plots.</dd>
<dt>...</dt>
<dd>Additional parameters to pass to the <code>check_marker</code> function.</dd></dl>

Arguments

Create Dot Plots for Markers from check_marker — plotSeuratDot

<dl>

<dt>srt</dt>
<dd>A Seurat object containing the single-cell data.</dd>


<dt>cls</dt>
<dd>A list containing cluster groups to check. Each element of the list
should correspond to a cluster or a group of clusters for which to generate
dot plots.</dd>


<dt>...</dt>
<dd>Additional parameters to pass to the <code>check_marker</code> function.</dd>

</dl>

plotSeuratDot: Create Dot Plots for Markers from check_marker

Description

Usage

Value

Arguments