cos_similarity

Computes the cosine similarity matrix from the gene signature matrix of a
<code>cellMarkers</code> object or any matrix. Note that this function computes cosine
similarity between matrix columns, unlike <code><a href="/link/dist()?package=cellGeometry&version=0.5.7" data-mini-rdoc="cellGeometry::dist()">dist()</a></code> which computes the
distance metric between matrix rows.

Deconvolution of bulk RNA-Sequencing data into proportions of cells based on a reference single-cell RNA-Sequencing dataset using high-dimensional geometric methodology.

Myles Lewis

cellGeometry

Geometric Single Cell Deconvolution

Rachel Lau

cos_similarity function

<dl><dt>x</dt>
<dd>Either a matrix or a 'cellMarkers' class or 'deconv' class object.</dd>
<dt>use_filter</dt>
<dd>Logical whether to use filtered gene signature.</dd></dl>

Arguments

Computes the cosine similarity matrix from the gene signature matrix of a
<code>cellMarkers</code> object or any matrix. Note that this function computes cosine
similarity between matrix columns, unlike <code><a href='https://rdrr.io/r/stats/dist.html'>dist()</a></code> which computes the
distance metric between matrix rows.

Gene signature cosine similarity matrix — cos_similarity

<dl>

<dt>x</dt>
<dd>Either a matrix or a 'cellMarkers' class or 'deconv' class object.</dd>


<dt>use_filter</dt>
<dd>Logical whether to use filtered gene signature.</dd>

</dl>

cos_similarity: Gene signature cosine similarity matrix

Description

Usage

Value

Arguments