calcVarFit

This function calculates a total variance fit comprising sampling noise, global cell-to-cell variability of transcript counts, and biological variability.

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

calcVarFit function

<dl><dt>noise</dt>
<dd>List of noise parameters returned by <code>compTBNoise</code>.</dd>
<dt>norm</dt>
<dd>Logical. If <code>TRUE</code> then total variance is normalized by the technical noise component (i.e., sampling noise plus global cell-to-cell variability in transcript counts.). Default is FALSE.</dd></dl>

Arguments

Function for calculating the total variance fit — calcVarFit

<dl>

<dt>noise</dt>
<dd>List of noise parameters returned by <code>compTBNoise</code>.</dd>


<dt>norm</dt>
<dd>Logical. If <code>TRUE</code> then total variance is normalized by the technical noise component (i.e., sampling noise plus global cell-to-cell variability in transcript counts.). Default is FALSE.</dd>

</dl>

calcVarFit: Function for calculating the total variance fit

Description

Usage

Value

Arguments