plotExptSNE

plotExptSNE,DISCBIO-method

The t-SNE map representation can also be used to analyze
 expression of a gene or a group of genes, to investigate cluster specific
 gene expression patterns

An open, multi-algorithmic pipeline for easy, fast and efficient
analysis of cellular sub-populations and the molecular signatures that
characterize them. The pipeline consists of four successive steps: data
pre-processing, cellular clustering with pseudo-temporal ordering, defining
differential expressed genes and biomarker identification. More details on
Ghannoum et. al. (2021) <doi:10.3390/ijms22031399>. This package implements
extensions of the work published by Ghannoum et. al. (2019)
<doi:10.1101/700989>.

Waldir Leoncio

DIscBIO

A User-Friendly Pipeline for Biomarker Discovery in Single-Cell
Transcriptomics

Salim Ghannoum

Alvaro Köhn-Luque

Damiano Fantini

plotExptSNE function

<dl><dt>object</dt>
<dd><code>DISCBIO</code> class object.</dd>
<dt>g</dt>
<dd>Individual gene name or vector with a group of gene names
corresponding to a subset of valid row names of the <code>ndata</code> slot of
the <code>DISCBIO</code> object.</dd>
<dt>n</dt>
<dd>String of characters representing the title of the plot. Default is
NULL and the first element of <code>g</code> is chosen.</dd></dl>

Arguments

Highlighting gene expression in the t-SNE map — plotExptSNE

<dl>

<dt>object</dt>
<dd><code>DISCBIO</code> class object.</dd>


<dt>g</dt>
<dd>Individual gene name or vector with a group of gene names
corresponding to a subset of valid row names of the <code>ndata</code> slot of
the <code>DISCBIO</code> object.</dd>


<dt>n</dt>
<dd>String of characters representing the title of the plot. Default is
NULL and the first element of <code>g</code> is chosen.</dd>

</dl>

plotExptSNE: Highlighting gene expression in the t-SNE map

Description

Usage

Value

Arguments