branchcells

This function computes expression z-score between groups of cells from the same cluster residing on different links

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

branchcells function

<dl><dt>object</dt>
<dd><code>Ltree</code> class object.</dd>
<dt>br</dt>
<dd>List containing two branches, where each component has to be two valid cluster numbers seperated by a <code>.</code> and with one common cluster in the two components. The lower number precedes the larger one, i.e. <code>1.3</code>.
For each component, the cluster number need to be ordered in increasing order.</dd></dl>

Arguments

Differential Gene Expression between Links — branchcells

<dl>

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


<dt>br</dt>
<dd>List containing two branches, where each component has to be two valid cluster numbers seperated by a <code>.</code> and with one common cluster in the two components. The lower number precedes the larger one, i.e. <code>1.3</code>.
For each component, the cluster number need to be ordered in increasing order.</dd>

</dl>

branchcells: Differential Gene Expression between Links

Description

Usage

Value

Arguments

Examples