compmedoids

This functions computes cluster medoids given an <code>SCseq</code> object and a clustering partition. The medoids are either derived from the
distance matrix or, if the slot <code>distances</code> is empty, from the dimensionally reduced feature matrix in slot <code>dimRed$x</code> using the euclidean metric.

Application of 'RaceID' allows inference of cell types and prediction of lineage trees by the 'StemID2' algorithm (Herman, J.S., Sagar, Grun D. (2018) <DOI:10.1038/nmeth.4662>). 'VarID2' is part of this package and allows quantification of biological gene expression noise at single-cell resolution (Rosales-Alvarez, R.E., Rettkowski, J., Herman, J.S., Dumbovic, G., Cabezas-Wallscheid, N., Grun, D. (2023) <DOI:10.1186/s13059-023-02974-1>).

Dominic Grc3<bc>n

RaceID

Identification of Cell Types, Inference of Lineage Trees, and
Prediction of Noise Dynamics from Single-Cell RNA-Seq Data

Dominic Grün

compmedoids function

<dl><dt>object</dt>
<dd><code>SCseq</code> class object.</dd>
<dt>part</dt>
<dd>Clustering partition. A vector of cluster numbers for (a subset of) cells (i.e. column names)
of slot <code>ndata</code> from the <code>SCseq</code> object.</dd></dl>

Arguments

Computes Medoids from a Clustering Partition — compmedoids

<dl>

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


<dt>part</dt>
<dd>Clustering partition. A vector of cluster numbers for (a subset of) cells (i.e. column names)
of slot <code>ndata</code> from the <code>SCseq</code> object.</dd>

</dl>

compmedoids: Computes Medoids from a Clustering Partition

Description

Usage

Value

Arguments