PhHermann/STRAH: Short Tandem Repeats Analysis of Hotspot Zones

Searches for short tandem repeats (STR) in a specified region of any genome. This analysis can be expanded such that several regions (chromosomes) are studied. These STRs can be grouped into hotspot as well as flanking regions of user specified width. Hotspots are defined by the double strand break maps from Pratto et al. (2014) <doi:10.1126/science.1256442>. Moreover, the user can also search for a specified motif in a DNAStringSet-object, or a fasta-file, or a specified region of any genome. For an application of STR detections please see Heissl et al. (2019) <doi:10.26508/lsa.201900364>.

Getting started

Package details

AuthorPhilipp Hermann [aut, cre] (https://orcid.org/0000-0003-4556-6297), Monika Heinzl [aut], Angelika Heissl [ctb], Irene Tiemann-Boege [ctb] (https://orcid.org/0000-0002-3621-7020), Andreas Futschik [ctb] (https://orcid.org/0000-0002-7980-0304)
MaintainerPhilipp Hermann <[email protected]>
LicenseMIT + file LICENSE
Version1.0.1
URL https://github.com/PhHermann/STRAH
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("PhHermann/STRAH")
PhHermann/STRAH documentation built on June 6, 2019, 8:39 p.m.