shuffle: shuffle reads

In jianhong/enhancerHomologSearch: Identification of putative mammalian orthologs to given enhancer

shuffle reads

Description

Uses the uShuffle library to shuffle reads

Usage

shuffle(reads, k = 2, n = 2)

Arguments

reads	An object of BStringSet.
k	the k-let size.
n	the number of random sequences to generate.

Value

An object of BStringSet.

References

Jiang, M., Anderson, J., Gillespie, J. et al. uShuffle: A useful tool for shuffling biological sequences while preserving the k-let counts. BMC Bioinformatics 9, 192 (2008). https://doi.org/10.1186/1471-2105-9-192

Examples

library(Biostrings)
f <- DNAStringSet(c("CTC-NACCAGTAT", "TTGA", "TACCTAGAG"))
shuffle(f)

jianhong/enhancerHomologSearch documentation built on March 25, 2024, 10:06 a.m.