permZero {scDD} | R Documentation

## permZero

### Description

Function to generate random permutations of nonzero values.

### Usage

    permZero(m, size, zmat)

### Arguments

`m` | Number of permuted sets to generate.
`size` | Number of samples present in the dataset
`zmat` | Matrix of indicators of whether the original data value is zero or not. Should contain the same number of rows and columns as original data matrix.

### Details

Generates random permutations for all genes, where the zeroes are kept fixed (i.e. only permute the nonzero condition labels).

### Value

a list of length 'm' (nperms) where each item is a 'ngenes' by 'size' matrix

### References

Korthauer KD, Chu LF, Newton MA, Li Y, Thomson J, Stewart R, Kendziorski C. A statistical approach for identifying differential distributions in single-cell RNA-seq experiments. Genome Biology. 2016 Oct 25;17(1):222. https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1077-y

[Package scDD version 1.11.1 Index]