celltype_effects {BUSseq} | R Documentation

## Obtain the Cell-type Effects from the Output of the `BUSseq_MCMC` Function

### Description

The function gives the estimated cell-type effects in the output `SingleCellExperiment` object.

### Usage

    celltype_effects(sce_BUSseqfit)

### Arguments

`sce_BUSseqfit` | An output `SingleCellExperiment` object by the function `BUSseq_MCMC`.

### Value

`beta.est` | The estimated cell-type effects, a G by K matrix, whose [g,k] element is the effects of cell type k on gene g compared with the first cell type. Note that the first column is zero as the first cell type is taken as the baseline cell type.

### Author(s)

Fangda Song

### References

Song, Fangda, Ga Ming Angus Chan, and Yingying Wei. Flexible experimental designs for valid single-cell RNA-sequencing experiments allowing batch effects correction. Nature communications 11, no. 1 (2020): 1-15.

### Examples

    # "BUSseqfits_example" is an example output
    BUSseqfits_example
    beta.est <- celltype_effects(BUSseqfits_example)

[Package BUSseq version 1.0.0 Index]