CellMixS-package {CellMixS} | R Documentation

## Toolbox to explore batch effects and data integration in scRNA data.

### Description

CellMixS provides metrics and functions to evaluate batch effects, data integration and batch effect correction in single cell trancriptome data with single cell resolution. Results can be visualized and summarised on different levels, e.g. on cell, celltype or dataset level.

### Details

In particular, CellMixS includes two main metrics: Cellspecific mixing scores to determine the probability of random mixing in each cell's neighbourhood. It can be assesed via the `cms` function. Local Density Factor Differences to evaluate the effect of data integration methods on batch internal structures. It can be assesed via the `ldfDiff` function.

### Author(s)

Almut Lütge almut.luetge@uzh.ch

Mark D Robinson mark.robinson@imls.uzh.ch

[Package CellMixS version 1.4.2 Index]