plotVolcano

This function generates a volcano plot for differentially expressed genes
(DEGs) using <code>ggplot2</code>. It allows for customization of the plot with
different aesthetic parameters.

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

plotVolcano function

<dl><dt>data</dt>
<dd>A data frame containing the DEGs result.</dd>
<dt>data.text</dt>
<dd>A data frame containing labeled data for text annotation.</dd>
<dt>x</dt>
<dd>variable representing the aesthetic for the x-axis.</dd>
<dt>y</dt>
<dd>variable representing the aesthetic for the y-axis.</dd>
<dt>color</dt>
<dd>variable representing the column name for the color aesthetic.</dd>
<dt>label</dt>
<dd>variable representing the column name for the text label aesthetic.</dd></dl>

Arguments

Plot Volcano Plot for Differentially Expressed Genes — plotVolcano

<dl>

<dt>data</dt>
<dd>A data frame containing the DEGs result.</dd>


<dt>data.text</dt>
<dd>A data frame containing labeled data for text annotation.</dd>


<dt>x</dt>
<dd>variable representing the aesthetic for the x-axis.</dd>


<dt>y</dt>
<dd>variable representing the aesthetic for the y-axis.</dd>


<dt>color</dt>
<dd>variable representing the column name for the color aesthetic.</dd>


<dt>label</dt>
<dd>variable representing the column name for the text label aesthetic.</dd>

</dl>

plotVolcano: Plot Volcano Plot for Differentially Expressed Genes

Description

Usage

Value

Arguments