periodicDNA: an R/Bioconductor package to investigate k-mer periodicity in DNA
Abstract
Periodic occurrences of oligonucleotide sequences can impact the physical properties of DNA. For example, DNA bendability is modulated by 10-bp periodic occurrences of WW (W = A/T) dinucleotides. We present periodicDNA, an R package to identify k-mer periodicity and generate continuous tracks of k-mer periodicity over genomic loci of interest, such as regulatory elements. periodicDNA will facilitate investigation and improve understanding of how periodic DNA sequence features impact function.
Software
Cite
Serizay J, Ahringer J. periodicDNA: an R/Bioconductor package to investigate k-mer periodicity in DNA. F1000 Research. 2021;10:141. doi:10.12688/f1000research.51143.1
BibTeX
@article{serizay_F1000_2021,
author = {Serizay, Jacques and Ahringer, Julie},
title = {{periodicDNA: an R/Bioconductor package to investigate k-mer periodicity in DNA}},
journal = {F1000 Research},
year = {2021},
volume = {10},
pages = {141},
doi = {10.12688/f1000research.51143.1},
url = {https://doi.org/10.12688/f1000research.51143.1}
}