sort_markers

This function reorders the selected marker genes using information of the sample
correlation matrix.

Implementation of the 'MarkerPen' algorithm, short for marker gene detection
via penalized principal component analysis, described in the paper by Qiu, Wang, Lei,
and Roeder (2021, <doi:10.1093/bioinformatics/btab257>). 'MarkerPen' is a semi-supervised
algorithm for detecting marker genes by combining prior marker information with bulk
transcriptome data.

Yixuan Qiu

markerpen

Marker Gene Detection via Penalized Principal Component Analysis

Jiebiao Wang

Jing Lei

Kathryn Roeder

sort_markers function

<dl><dt>corr</dt>
<dd>The sample correlation matrix, whose row and column names are gene names.</dd>
<dt>markers</dt>
<dd>A list of marker genes. Each component of the list is a vector of marker
gene names corresponding to a cell type. All the gene names in this list
must appear in the row/column names of <code>corr</code>.</dd></dl>

Arguments

Post-processing Selected Marker Genes — sort_markers

<dl>

<dt>corr</dt>
<dd>The sample correlation matrix, whose row and column names are gene names.</dd>


<dt>markers</dt>
<dd>A list of marker genes. Each component of the list is a vector of marker
gene names corresponding to a cell type. All the gene names in this list
must appear in the row/column names of <code>corr</code>.</dd>

</dl>

sort_markers: Post-processing Selected Marker Genes

Description

Usage

Value

Arguments