Package: pqsfinder
Type: Package
Title: Identification of potential quadruplex forming sequences
Version: 2.25.0
Date: 2021-11-21
URL: https://pqsfinder.fi.muni.cz
Authors@R: c(person("Jiri", "Hon", role = c("aut", "cre"), email =
        "jiri.hon@gmail.com"), person("Dominika", "Labudova",
        role = "aut", email = "d.labudova@gmail.com"),
        person("Tomas", "Martinek", role = "aut", email =
        "martinto@fit.vutbr.cz"), person("Matej", "Lexa",
        role = "aut", email = "lexa@fi.muni.cz"))
Author: Jiri Hon, Dominika Labudova, Matej Lexa and Tomas Martinek
Maintainer: Jiri Hon <jiri.hon@gmail.com>
Description: Pqsfinder detects
        DNA and RNA sequence patterns that are likely to fold into an
        intramolecular G-quadruplex (G4). Unlike many other approaches,
        pqsfinder is able to detect G4s
        folded from imperfect G-runs containing bulges or mismatches
        or G4s having long loops. Pqsfinder also assigns an integer score
        to each hit that was fitted on G4 sequencing data and corresponds
        to expected stability of the folded G4.
License: BSD_2_clause + file LICENSE
biocViews: MotifDiscovery, SequenceMatching, GeneRegulation
Depends: R (>= 3.5.0), Biostrings
Imports: Rcpp (>= 0.12.3), GenomicRanges, IRanges, S4Vectors, methods
Suggests: BiocStyle, knitr, rmarkdown, Gviz, rtracklayer, ggplot2,
        BSgenome.Hsapiens.UCSC.hg38, testthat, stringr, stringi
LinkingTo: Rcpp, BH (>= 1.78.0)
SystemRequirements: GNU make, C++11
VignetteBuilder: knitr
RoxygenNote: 7.1.2
Encoding: UTF-8
NeedsCompilation: yes
git_url: https://git.bioconductor.org/packages/pqsfinder
git_branch: devel
git_last_commit: 969f685
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-10-07
Packaged: 2025-10-07 23:27:05 UTC; biocbuild
Built: R 4.6.0; x86_64-w64-mingw32; 2025-10-29 19:08:36 UTC; windows
Archs: x64
